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1 | group: alzheimer patient,gender: male,age: 74 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132689 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116276,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273418 | GSM1132689 | GSE46579 | 0.195754 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 1 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273418 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116276 |
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1 | group: alzheimer patient,gender: male,age: 68 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132690 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116280,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273419 | GSM1132690 | GSE46579 | 0.285453 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 2 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273419 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116280 |
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1 | group: alzheimer patient,gender: female,age: 75 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132691 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116278,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273420 | GSM1132691 | GSE46579 | 0.285453 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 3 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273420 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116278 |
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1 | group: alzheimer patient,gender: male,age: 74 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132692 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116279,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273421 | GSM1132692 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 4 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273421 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116279 |
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1 | group: alzheimer patient,gender: male,age: 76 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132693 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116277,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273422 | GSM1132693 | GSE46579 | 0.375637 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 5 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273422 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116277 |
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1 | group: alzheimer patient,gender: male,age: 79 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132694 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116281,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273423 | GSM1132694 | GSE46579 | 0.20245 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 6 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273423 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116281 |
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1 | group: alzheimer patient,gender: female,age: 75 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132695 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116282,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273424 | GSM1132695 | GSE46579 | 0.31193 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273424 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116282 |
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1 | group: alzheimer patient,gender: male,age: 77 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132696 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116283,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273425 | GSM1132696 | GSE46579 | 0.335223 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 8 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273425 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116283 |
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1 | group: alzheimer patient,gender: female,age: 72 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132697 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116284,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273426 | GSM1132697 | GSE46579 | 0.278654 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 9 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273426 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116284 |
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1 | group: alzheimer patient,gender: male,age: 76 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132698 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116285,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273427 | GSM1132698 | GSE46579 | 0.317797 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 10 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273427 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116285 |
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1 | group: alzheimer patient,gender: male,age: 61 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132699 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116286,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273428 | GSM1132699 | GSE46579 | 0.119973 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 11 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273428 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116286 |
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1 | group: alzheimer patient,gender: female,age: 51 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132700 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116287,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273429 | GSM1132700 | GSE46579 | 0.285453 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 12 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273429 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116287 |
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1 | group: alzheimer patient,gender: female,age: 55 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132701 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116288,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273430 | GSM1132701 | GSE46579 | 0.177057 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 13 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273430 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116288 |
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1 | group: alzheimer patient,gender: female,age: 70 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132702 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116289,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273431 | GSM1132702 | GSE46579 | 0.31326 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 14 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273431 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116289 |
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1 | group: alzheimer patient,gender: female,age: 78 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132703 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116290,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273432 | GSM1132703 | GSE46579 | 0.207832 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 15 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273432 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116290 |
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1 | group: alzheimer patient,gender: male,age: 81 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132704 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116291,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273433 | GSM1132704 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 16 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273433 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116291 |
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1 | group: alzheimer patient,gender: female,age: 72 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132705 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116292,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273434 | GSM1132705 | GSE46579 | 0.21648 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 17 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273434 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116292 |
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1 | group: alzheimer patient,gender: male,age: 57 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132706 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116296,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273435 | GSM1132706 | GSE46579 | 0.296525 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 18 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273435 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116296 |
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1 | group: alzheimer patient,gender: male,age: 75 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132707 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116297,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273436 | GSM1132707 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 19 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273436 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116297 |
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1 | group: alzheimer patient,gender: female,age: 70 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132708 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116298,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273437 | GSM1132708 | GSE46579 | 0.285453 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 20 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273437 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116298 |
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1 | group: alzheimer patient,gender: female,age: 75 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132709 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116299,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273438 | GSM1132709 | GSE46579 | 0.362547 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 21 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273438 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116299 |
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1 | group: alzheimer patient,gender: female,age: 69 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132710 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116300,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273439 | GSM1132710 | GSE46579 | 0.284894 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 22 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273439 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116300 |
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1 | group: alzheimer patient,gender: female,age: 68 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132711 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116294,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273440 | GSM1132711 | GSE46579 | 0.297059 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 23 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273440 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116294 |
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1 | group: alzheimer patient,gender: female,age: 71 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132712 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116295,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273441 | GSM1132712 | GSE46579 | 0.285453 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 24 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273441 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116295 |
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1 | group: alzheimer patient,gender: male,age: 74 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132713 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116293,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273442 | GSM1132713 | GSE46579 | 0.232926 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 25 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273442 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116293 |
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1 | group: alzheimer patient,gender: male,age: 72 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132714 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116305,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273443 | GSM1132714 | GSE46579 | 0.223526 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 26 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273443 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116305 |
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1 | group: alzheimer patient,gender: female,age: 69 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132715 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116306,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273444 | GSM1132715 | GSE46579 | 0.285453 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 27 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273444 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116306 |
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1 | group: alzheimer patient,gender: female,age: 63 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132716 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116307,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273445 | GSM1132716 | GSE46579 | 0.098092 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 28 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273445 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116307 |
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1 | group: alzheimer patient,gender: male,age: 80 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132717 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116308,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273446 | GSM1132717 | GSE46579 | 0.252287 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 29 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273446 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116308 |
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1 | group: alzheimer patient,gender: male,age: 62 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132718 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116301,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273447 | GSM1132718 | GSE46579 | 0.317336 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 30 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273447 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116301 |
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1 | group: alzheimer patient,gender: male,age: 75 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132719 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116302,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273448 | GSM1132719 | GSE46579 | 0.316551 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 31 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273448 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116302 |
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1 | group: alzheimer patient,gender: female,age: 56 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132720 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116303,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273449 | GSM1132720 | GSE46579 | 0.218325 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 32 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273449 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116303 |
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1 | group: alzheimer patient,gender: female,age: 57 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132721 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116304,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273450 | GSM1132721 | GSE46579 | 0.354347 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 33 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273450 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116304 |
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1 | group: control,gender: male,age: 76 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132722 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116309,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273451 | GSM1132722 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 0 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273451 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116309 |
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1 | group: control,gender: female,age: 60 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132723 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116310,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273452 | GSM1132723 | GSE46579 | 0.365327 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 1 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273452 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116310 |
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1 | group: control,gender: female,age: 60 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132724 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116311,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273453 | GSM1132724 | GSE46579 | 0.296525 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 2 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273453 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116311 |
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1 | group: control,gender: female,age: 76 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132725 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116312,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273454 | GSM1132725 | GSE46579 | 0.31326 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 3 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273454 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116312 |
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1 | group: control,gender: female,age: 60 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132726 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116313,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273455 | GSM1132726 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 4 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273455 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116313 |
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1 | group: control,gender: male,age: 83 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132727 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116314,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273456 | GSM1132727 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 5 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273456 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116314 |
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1 | group: control,gender: male,age: 61 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132728 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116315,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273457 | GSM1132728 | GSE46579 | 0.208688 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 6 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273457 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116315 |
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1 | group: control,gender: male,age: 77 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132729 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116316,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273458 | GSM1132729 | GSE46579 | 0.22283 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273458 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116316 |
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1 | group: control,gender: male,age: 63 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132730 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116317,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273459 | GSM1132730 | GSE46579 | 0.314062 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 8 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273459 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116317 |
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1 | group: control,gender: male,age: 75 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132731 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116318,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273460 | GSM1132731 | GSE46579 | 0.214879 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 9 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273460 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116318 |
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1 | group: control,gender: male,age: 63 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132732 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116319,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273461 | GSM1132732 | GSE46579 | 0.243636 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 10 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273461 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116319 |
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1 | group: control,gender: male,age: 64 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132733 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116320,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273462 | GSM1132733 | GSE46579 | 0.218343 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 11 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273462 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116320 |
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1 | group: control,gender: female,age: 71 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132734 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116321,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273463 | GSM1132734 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 12 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273463 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116321 |
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1 | group: control,gender: female,age: 60 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132735 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116322,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273464 | GSM1132735 | GSE46579 | 0.288559 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 13 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273464 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116322 |
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1 | group: control,gender: male,age: 75 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132736 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116323,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273465 | GSM1132736 | GSE46579 | 0.317898 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 14 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273465 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116323 |
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1 | group: control,gender: female,age: 60 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132737 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116324,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273466 | GSM1132737 | GSE46579 | 0.271143 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 15 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273466 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116324 |
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1 | group: control,gender: female,age: 66 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132738 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116325,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273467 | GSM1132738 | GSE46579 | 0.380043 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 16 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273467 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116325 |
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1 | group: control,gender: female,age: 60 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132739 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116326,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273468 | GSM1132739 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 17 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273468 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116326 |
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1 | group: control,gender: male,age: 61 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132740 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116327,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273469 | GSM1132740 | GSE46579 | 0.33089 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 18 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273469 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116327 |
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1 | group: control,gender: female,age: 74 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132741 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116328,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273470 | GSM1132741 | GSE46579 | 0.311172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 19 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273470 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116328 |
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1 | group: control,gender: female,age: 71 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132742 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116329,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273471 | GSM1132742 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 20 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273471 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116329 |
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1 | group: control,gender: male,age: 60 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132743 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116330,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273472 | GSM1132743 | GSE46579 | 0.416988 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | control sample 21 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273472 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116330 |
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1 | group: alzheimer patient,gender: male,age: 80 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132744 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116331,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273473 | GSM1132744 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 34 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273473 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116331 |
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1 | group: alzheimer patient,gender: male,age: 81 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132745 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116337,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273474 | GSM1132745 | GSE46579 | 0.285453 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 35 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273474 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116337 |
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1 | group: alzheimer patient,gender: female,age: 76 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132746 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116338,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273475 | GSM1132746 | GSE46579 | 0.211903 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 36 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273475 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116338 |
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1 | group: alzheimer patient,gender: female,age: 60 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132747 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116339,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273476 | GSM1132747 | GSE46579 | 0.229721 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 37 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273476 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116339 |
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1 | group: alzheimer patient,gender: female,age: 63 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132748 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116332,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273477 | GSM1132748 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 38 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273477 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116332 |
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1 | group: alzheimer patient,gender: female,age: 64 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132749 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116333,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273478 | GSM1132749 | GSE46579 | 0.21648 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 39 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273478 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116333 |
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1 | group: alzheimer patient,gender: male,age: 65 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132750 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116334,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273479 | GSM1132750 | GSE46579 | 0.245049 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 40 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273479 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116334 |
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1 | group: alzheimer patient,gender: female,age: 74 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132751 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116335,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273480 | GSM1132751 | GSE46579 | 0.21648 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 41 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273480 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116335 |
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1 | group: alzheimer patient,gender: female,age: 59 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132752 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116336,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273481 | GSM1132752 | GSE46579 | 0.305172 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 42 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273481 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116336 |
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1 | group: alzheimer patient,gender: female,age: 72 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132753 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116340,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273482 | GSM1132753 | GSE46579 | 0.296525 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 43 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273482 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116340 |
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1 | group: alzheimer patient,gender: male,age: 63 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132754 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116341,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273483 | GSM1132754 | GSE46579 | 0.285453 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 44 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273483 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116341 |
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1 | group: alzheimer patient,gender: male,age: 78 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132755 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116342,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273484 | GSM1132755 | GSE46579 | 0.378478 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 45 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273484 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116342 |
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1 | group: alzheimer patient,gender: male,age: 78 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132756 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116343,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273485 | GSM1132756 | GSE46579 | 0.398197 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 46 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273485 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116343 |
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1 | group: alzheimer patient,gender: male,age: 79 | Building 60 | Homburg | Germany | Saarland University | Andreas,,Keller | Demultiplexing of the raw sequencing data and generation of the fastq files was done using CASAVA v.1.8.2,The raw reads were preprocessed by cutting the 3' adapter sequence using the program fastx_clipper from the FASTX-Toolkit,mirbase v18 counts and counts for novel predicted miRNAs were collected using the miRDeep2 pipeline,miRNAs with less than 50 read counts summed up across all samples of each group (ad or control) were excluded from further analysis,the counts were normalized by quantile normalization,Genome_build: hg19,Supplementary_files_format_and_content: Excel table containing the raw mirbase and novel mirna counts and the quantile normalized counts | Total RNA including miRNA was isolated using the PAXgene Blood miRNA Kit (Qiagen) following the manufacturerâs recommendations.,For the library preparation, 200 ng of total RNA was used per sample. Preparation was performed following the protocol of the TruSeq Small RNA Sample Prep Kit (Illumina). Libraries were then pooled in batches of six samples in equal amounts and clustered with a concentration of 9 pmol in one lane each of a single read flowcell using the cBot (Illumina). | GSM1132757 | Illumina HiSeq 2000 | May 15 2019 | size fractionation | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116344,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273486 | GSM1132757 | GSE46579 | 0.3539 | whole blood | Public on Jun 17 2013 | May 02 2013 | 9606 | AD sample 47 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273486 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116344 |
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1 | cell line: LCL-BAC | Robert-Rössle-StraÃe 10 | Berlin | Germany | MDC Berlin | Neelanjan,,Mukherjee | PAR-CLIP: Libraries were stripped of the 3â adapter sequence and 5' barcode using the FASTX toolkit (http://hannonlab.cshl.edu/fastx_toolkit/). Reads that were less than 13 nt in length or contained an ambiguous nucleotide were discarded. The small RNA files are in a tab-delimited form: SEQUENCE READCOUNT. The Ago2 PARCLIP reads were aligned to the human genome (hg19), with up to 2 mismatches allowed, by the Bowtie algorithm (Langmead et al., 2009). Mapped locations were only reported for those with the minimum number of observed mismatches for each read. All T to C mismatches between the RNA fragment and the genome were subtracted from the mismatch count for each mapped location. After subtraction only reads that mapped to a single genomic location at the minimum number of mismatches were used for further analysis. The location that a read mapped, relative to a known transcript, was determined based on the ENSEMBL v57 database 1 (Hubbard et al., 2007). If a read mapped to a location representing multiple categories, it was reported to belong to the category based on the following order of preference: 3âUTR, coding sequence, 5âUTR, intron, non-coding RNA, intergenic. Defining microRNA interaction sites by PARalyzer: Overlapping reads were grouped together for further analysis. A group must have contained â¥5 reads with conversions at two or more locations. Separate kernel density estimates were calculated across all positions based on read counts both with and without T to C conversions, as long as there was a minimum read depth of 5 at a position to ensure a robust density estimate. Clusters (*.bed files) were defined as regions for which the conversion density was greater than the non-conversion density for at least 5 consecutive nucleotides, and extended until the group read depth fell below 5. Following filtering (see supplemental methods), clusters were scored by a cross-linking index (CLI) = log2(1+T to C conversion events for all reads within a cluster). PARalyzer is available at http://www.genome.duke.edu/labs/ohler/research/PARalyzer,RNA-seq: RNA-seq data was aligned and quantified using RSEM with reference genome and transcript annotation [B. Li and C. Dewey (2011) RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics 12:323]. All necessary transcript annotation, genomic sequence, and alignment indices were downloaded from the Illumina iGenomes collection for Ensembl build GRCh37. Differential analysis was performed using EBseq within RSEM [Leng, N., J.A. Dawson, J.A. Thomson, V. Ruotti, A.I. Rissman, B.M.G. Smits, J.D. Haag, M.N. Gould, R.M. Stewart, and C. Kendziorski. EBSeq: An empirical Bayes hierarchical model for inference in RNA-seq experiments, UW-Madison Department of Biostatistics and Medical Informatics Paper, Bioinformatics 2012].,Genome_build: hg19,Supplementary_files_format_and_content: bed and expression | Total RNA was extracted with TRIzol (Life Technologies) and paired-end RNA seq libraries were generated using Ribozero and Scriptseq v2 kits (Epicentre). | GSM1133247 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116957,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273677 | GSM1133247 | GSE46611 | 0.00792 | LCL cell line established using EBV B95-8 BACmid | Public on May 25 2013 | May 03 2013 | 9606 | LCLBACWT | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273677 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116957 |
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1 | cell line: LCL-BACD1 | Robert-Rössle-StraÃe 10 | Berlin | Germany | MDC Berlin | Neelanjan,,Mukherjee | PAR-CLIP: Libraries were stripped of the 3â adapter sequence and 5' barcode using the FASTX toolkit (http://hannonlab.cshl.edu/fastx_toolkit/). Reads that were less than 13 nt in length or contained an ambiguous nucleotide were discarded. The small RNA files are in a tab-delimited form: SEQUENCE READCOUNT. The Ago2 PARCLIP reads were aligned to the human genome (hg19), with up to 2 mismatches allowed, by the Bowtie algorithm (Langmead et al., 2009). Mapped locations were only reported for those with the minimum number of observed mismatches for each read. All T to C mismatches between the RNA fragment and the genome were subtracted from the mismatch count for each mapped location. After subtraction only reads that mapped to a single genomic location at the minimum number of mismatches were used for further analysis. The location that a read mapped, relative to a known transcript, was determined based on the ENSEMBL v57 database 1 (Hubbard et al., 2007). If a read mapped to a location representing multiple categories, it was reported to belong to the category based on the following order of preference: 3âUTR, coding sequence, 5âUTR, intron, non-coding RNA, intergenic. Defining microRNA interaction sites by PARalyzer: Overlapping reads were grouped together for further analysis. A group must have contained â¥5 reads with conversions at two or more locations. Separate kernel density estimates were calculated across all positions based on read counts both with and without T to C conversions, as long as there was a minimum read depth of 5 at a position to ensure a robust density estimate. Clusters (*.bed files) were defined as regions for which the conversion density was greater than the non-conversion density for at least 5 consecutive nucleotides, and extended until the group read depth fell below 5. Following filtering (see supplemental methods), clusters were scored by a cross-linking index (CLI) = log2(1+T to C conversion events for all reads within a cluster). PARalyzer is available at http://www.genome.duke.edu/labs/ohler/research/PARalyzer,RNA-seq: RNA-seq data was aligned and quantified using RSEM with reference genome and transcript annotation [B. Li and C. Dewey (2011) RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics 12:323]. All necessary transcript annotation, genomic sequence, and alignment indices were downloaded from the Illumina iGenomes collection for Ensembl build GRCh37. Differential analysis was performed using EBseq within RSEM [Leng, N., J.A. Dawson, J.A. Thomson, V. Ruotti, A.I. Rissman, B.M.G. Smits, J.D. Haag, M.N. Gould, R.M. Stewart, and C. Kendziorski. EBSeq: An empirical Bayes hierarchical model for inference in RNA-seq experiments, UW-Madison Department of Biostatistics and Medical Informatics Paper, Bioinformatics 2012].,Genome_build: hg19,Supplementary_files_format_and_content: bed and expression | Total RNA was extracted with TRIzol (Life Technologies) and paired-end RNA seq libraries were generated using Ribozero and Scriptseq v2 kits (Epicentre). | GSM1133248 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116958,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273678 | GSM1133248 | GSE46611 | 0.004267 | LCL cell line established using EBV B95-8 BACmid lacking ebv-mir-BHRF1-1 (D1), RNA-seq biological replicate #1 | Public on May 25 2013 | May 03 2013 | 9606 | LCLBACD1_1 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273678 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116958 |
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1 | cell line: LCL-BACD1 | Robert-Rössle-StraÃe 10 | Berlin | Germany | MDC Berlin | Neelanjan,,Mukherjee | PAR-CLIP: Libraries were stripped of the 3â adapter sequence and 5' barcode using the FASTX toolkit (http://hannonlab.cshl.edu/fastx_toolkit/). Reads that were less than 13 nt in length or contained an ambiguous nucleotide were discarded. The small RNA files are in a tab-delimited form: SEQUENCE READCOUNT. The Ago2 PARCLIP reads were aligned to the human genome (hg19), with up to 2 mismatches allowed, by the Bowtie algorithm (Langmead et al., 2009). Mapped locations were only reported for those with the minimum number of observed mismatches for each read. All T to C mismatches between the RNA fragment and the genome were subtracted from the mismatch count for each mapped location. After subtraction only reads that mapped to a single genomic location at the minimum number of mismatches were used for further analysis. The location that a read mapped, relative to a known transcript, was determined based on the ENSEMBL v57 database 1 (Hubbard et al., 2007). If a read mapped to a location representing multiple categories, it was reported to belong to the category based on the following order of preference: 3âUTR, coding sequence, 5âUTR, intron, non-coding RNA, intergenic. Defining microRNA interaction sites by PARalyzer: Overlapping reads were grouped together for further analysis. A group must have contained â¥5 reads with conversions at two or more locations. Separate kernel density estimates were calculated across all positions based on read counts both with and without T to C conversions, as long as there was a minimum read depth of 5 at a position to ensure a robust density estimate. Clusters (*.bed files) were defined as regions for which the conversion density was greater than the non-conversion density for at least 5 consecutive nucleotides, and extended until the group read depth fell below 5. Following filtering (see supplemental methods), clusters were scored by a cross-linking index (CLI) = log2(1+T to C conversion events for all reads within a cluster). PARalyzer is available at http://www.genome.duke.edu/labs/ohler/research/PARalyzer,RNA-seq: RNA-seq data was aligned and quantified using RSEM with reference genome and transcript annotation [B. Li and C. Dewey (2011) RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics 12:323]. All necessary transcript annotation, genomic sequence, and alignment indices were downloaded from the Illumina iGenomes collection for Ensembl build GRCh37. Differential analysis was performed using EBseq within RSEM [Leng, N., J.A. Dawson, J.A. Thomson, V. Ruotti, A.I. Rissman, B.M.G. Smits, J.D. Haag, M.N. Gould, R.M. Stewart, and C. Kendziorski. EBSeq: An empirical Bayes hierarchical model for inference in RNA-seq experiments, UW-Madison Department of Biostatistics and Medical Informatics Paper, Bioinformatics 2012].,Genome_build: hg19,Supplementary_files_format_and_content: bed and expression | Total RNA was extracted with TRIzol (Life Technologies) and paired-end RNA seq libraries were generated using Ribozero and Scriptseq v2 kits (Epicentre). | GSM1133249 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116959,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273679 | GSM1133249 | GSE46611 | 0.003197 | LCL cell line established using EBV B95-8 BACmid lacking ebv-mir-BHRF1-1 (D1), RNA-seq biological replicate #2 | Public on May 25 2013 | May 03 2013 | 9606 | LCLBACD1_2 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273679 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116959 |
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1 | cell line: LCL-BACD2 | Robert-Rössle-StraÃe 10 | Berlin | Germany | MDC Berlin | Neelanjan,,Mukherjee | PAR-CLIP: Libraries were stripped of the 3â adapter sequence and 5' barcode using the FASTX toolkit (http://hannonlab.cshl.edu/fastx_toolkit/). Reads that were less than 13 nt in length or contained an ambiguous nucleotide were discarded. The small RNA files are in a tab-delimited form: SEQUENCE READCOUNT. The Ago2 PARCLIP reads were aligned to the human genome (hg19), with up to 2 mismatches allowed, by the Bowtie algorithm (Langmead et al., 2009). Mapped locations were only reported for those with the minimum number of observed mismatches for each read. All T to C mismatches between the RNA fragment and the genome were subtracted from the mismatch count for each mapped location. After subtraction only reads that mapped to a single genomic location at the minimum number of mismatches were used for further analysis. The location that a read mapped, relative to a known transcript, was determined based on the ENSEMBL v57 database 1 (Hubbard et al., 2007). If a read mapped to a location representing multiple categories, it was reported to belong to the category based on the following order of preference: 3âUTR, coding sequence, 5âUTR, intron, non-coding RNA, intergenic. Defining microRNA interaction sites by PARalyzer: Overlapping reads were grouped together for further analysis. A group must have contained â¥5 reads with conversions at two or more locations. Separate kernel density estimates were calculated across all positions based on read counts both with and without T to C conversions, as long as there was a minimum read depth of 5 at a position to ensure a robust density estimate. Clusters (*.bed files) were defined as regions for which the conversion density was greater than the non-conversion density for at least 5 consecutive nucleotides, and extended until the group read depth fell below 5. Following filtering (see supplemental methods), clusters were scored by a cross-linking index (CLI) = log2(1+T to C conversion events for all reads within a cluster). PARalyzer is available at http://www.genome.duke.edu/labs/ohler/research/PARalyzer,RNA-seq: RNA-seq data was aligned and quantified using RSEM with reference genome and transcript annotation [B. Li and C. Dewey (2011) RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics 12:323]. All necessary transcript annotation, genomic sequence, and alignment indices were downloaded from the Illumina iGenomes collection for Ensembl build GRCh37. Differential analysis was performed using EBseq within RSEM [Leng, N., J.A. Dawson, J.A. Thomson, V. Ruotti, A.I. Rissman, B.M.G. Smits, J.D. Haag, M.N. Gould, R.M. Stewart, and C. Kendziorski. EBSeq: An empirical Bayes hierarchical model for inference in RNA-seq experiments, UW-Madison Department of Biostatistics and Medical Informatics Paper, Bioinformatics 2012].,Genome_build: hg19,Supplementary_files_format_and_content: bed and expression | Total RNA was extracted with TRIzol (Life Technologies) and paired-end RNA seq libraries were generated using Ribozero and Scriptseq v2 kits (Epicentre). | GSM1133250 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116960,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273680 | GSM1133250 | GSE46611 | 0.005481 | LCL cell line established using EBV B95-8 BACmid lacking ebv-mir-BHRF1-2 (D2) | Public on May 25 2013 | May 03 2013 | 9606 | LCLBACD2 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273680 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116960 |
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1 | cell line: LCL-BACD3 | Robert-Rössle-StraÃe 10 | Berlin | Germany | MDC Berlin | Neelanjan,,Mukherjee | PAR-CLIP: Libraries were stripped of the 3â adapter sequence and 5' barcode using the FASTX toolkit (http://hannonlab.cshl.edu/fastx_toolkit/). Reads that were less than 13 nt in length or contained an ambiguous nucleotide were discarded. The small RNA files are in a tab-delimited form: SEQUENCE READCOUNT. The Ago2 PARCLIP reads were aligned to the human genome (hg19), with up to 2 mismatches allowed, by the Bowtie algorithm (Langmead et al., 2009). Mapped locations were only reported for those with the minimum number of observed mismatches for each read. All T to C mismatches between the RNA fragment and the genome were subtracted from the mismatch count for each mapped location. After subtraction only reads that mapped to a single genomic location at the minimum number of mismatches were used for further analysis. The location that a read mapped, relative to a known transcript, was determined based on the ENSEMBL v57 database 1 (Hubbard et al., 2007). If a read mapped to a location representing multiple categories, it was reported to belong to the category based on the following order of preference: 3âUTR, coding sequence, 5âUTR, intron, non-coding RNA, intergenic. Defining microRNA interaction sites by PARalyzer: Overlapping reads were grouped together for further analysis. A group must have contained â¥5 reads with conversions at two or more locations. Separate kernel density estimates were calculated across all positions based on read counts both with and without T to C conversions, as long as there was a minimum read depth of 5 at a position to ensure a robust density estimate. Clusters (*.bed files) were defined as regions for which the conversion density was greater than the non-conversion density for at least 5 consecutive nucleotides, and extended until the group read depth fell below 5. Following filtering (see supplemental methods), clusters were scored by a cross-linking index (CLI) = log2(1+T to C conversion events for all reads within a cluster). PARalyzer is available at http://www.genome.duke.edu/labs/ohler/research/PARalyzer,RNA-seq: RNA-seq data was aligned and quantified using RSEM with reference genome and transcript annotation [B. Li and C. Dewey (2011) RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome. BMC Bioinformatics 12:323]. All necessary transcript annotation, genomic sequence, and alignment indices were downloaded from the Illumina iGenomes collection for Ensembl build GRCh37. Differential analysis was performed using EBseq within RSEM [Leng, N., J.A. Dawson, J.A. Thomson, V. Ruotti, A.I. Rissman, B.M.G. Smits, J.D. Haag, M.N. Gould, R.M. Stewart, and C. Kendziorski. EBSeq: An empirical Bayes hierarchical model for inference in RNA-seq experiments, UW-Madison Department of Biostatistics and Medical Informatics Paper, Bioinformatics 2012].,Genome_build: hg19,Supplementary_files_format_and_content: bed and expression | Total RNA was extracted with TRIzol (Life Technologies) and paired-end RNA seq libraries were generated using Ribozero and Scriptseq v2 kits (Epicentre). | GSM1133251 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116961,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273681 | GSM1133251 | GSE46611 | 0.00955 | LCL cell line established using EBV B95-8 BACmid lacking ebv-mir-BHRF1-3 (D3) | Public on May 25 2013 | May 03 2013 | 9606 | LCLBACD3 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273681 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116961 |
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1 | cell line: HeLa | Huang-Pu Avenue West 601 | Guangzhou | China | Jinan University | Gong,,Zhang | Basecalling and basic quality filtering was performed in Illumina HiSeq-2000 by default settings.,Reads were truncated at the first nucleotide whose Phred score is less than 10.,Reads shorter than 18nt are discarded,Mapping reference sequence: RefSeq-RNA (accessed from UCSC genome browser on Jan 21. 2013),For mRNA and RNC-mRNA datasets: reads were mapped to RefSeq-RNA using FANSe2 -S10 -E4 -U0,For RFP dataset: reads were mapped to RefSeq-RNA using FANSe2 -S10 -E2 -U1,Genes were quantified using rpkM method,Genome_build: hg19,Supplementary_files_format_and_content: HeLa rpkM all.txt,Supplementary_files_format_and_content: Content: rpkM of all quantified genes in all three datasets | mRNA extraction: standard Trizol protocol,mRNA: NEBNext mRNA library construction kit | GSM1133259 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116920,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273669 | GSM1133259 | GSE46613 | 0.000851 | HeLa cells | Public on Feb 09 2016 | May 03 2013 | 9606 | HeLa mRNA | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273669 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116920 |
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1 | cell line: HeLa | Huang-Pu Avenue West 601 | Guangzhou | China | Jinan University | Gong,,Zhang | Basecalling and basic quality filtering was performed in Illumina HiSeq-2000 by default settings.,Reads were truncated at the first nucleotide whose Phred score is less than 10.,Reads shorter than 18nt are discarded,Mapping reference sequence: RefSeq-RNA (accessed from UCSC genome browser on Jan 21. 2013),For mRNA and RNC-mRNA datasets: reads were mapped to RefSeq-RNA using FANSe2 -S10 -E4 -U0,For RFP dataset: reads were mapped to RefSeq-RNA using FANSe2 -S10 -E2 -U1,Genes were quantified using rpkM method,Genome_build: hg19,Supplementary_files_format_and_content: HeLa rpkM all.txt,Supplementary_files_format_and_content: Content: rpkM of all quantified genes in all three datasets | RNC-mRNA extraction protocol: see PMID: 23519614,RNC-mRNA: NEBNext mRNA library construction kit | GSM1133260 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02116921,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX273670 | GSM1133260 | GSE46613 | 0.0077 | HeLa cells | Public on Feb 09 2016 | May 03 2013 | 9606 | HeLa RNC-mRNA | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX273670 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02116921 |
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1 | time: pre-LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133660 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117493,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275432 | GSM1133660 | GSE46665 | 0.00224 | Sample_1_0 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_1_0 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275432 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117493 |
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1 | time: 7 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133661 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117494,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275433 | GSM1133661 | GSE46665 | 0.001302 | Sample_1_7 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_1_7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275433 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117494 |
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1 | time: 180 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133662 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117495,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275434 | GSM1133662 | GSE46665 | 0.000382 | Sample_1_180 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_1_180 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275434 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117495 |
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1 | time: pre-LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133663 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117496,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275435 | GSM1133663 | GSE46665 | 0.005429 | Sample_2_0 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_2_0 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275435 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117496 |
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1 | time: 7 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133664 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117497,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275436 | GSM1133664 | GSE46665 | 0.000888 | Sample_2_7 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_2_7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275436 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117497 |
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1 | time: pre-LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133665 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117498,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275437 | GSM1133665 | GSE46665 | 0.010104 | Sample_3_0 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_3_0 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275437 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117498 |
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1 | time: 7 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133666 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117499,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275438 | GSM1133666 | GSE46665 | 0.002467 | Sample_3_7 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_3_7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275438 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117499 |
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1 | time: 180 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133667 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117500,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275439 | GSM1133667 | GSE46665 | 0.003773 | Sample_3_180 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_3_180 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275439 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117500 |
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1 | time: pre-LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133668 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117501,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275440 | GSM1133668 | GSE46665 | 0.002937 | Sample_4_0 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_4_0 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275440 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117501 |
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1 | time: 7 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133669 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117502,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275441 | GSM1133669 | GSE46665 | 0.000739 | Sample_4_7 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_4_7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275441 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117502 |
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1 | time: 180 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133670 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117503,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275442 | GSM1133670 | GSE46665 | 0.00104 | Sample_4_180 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_4_180 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275442 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117503 |
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1 | time: pre-LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133671 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117504,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275443 | GSM1133671 | GSE46665 | 0.002277 | Sample_5_0 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_5_0 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275443 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117504 |
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1 | time: 7 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133672 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117505,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275444 | GSM1133672 | GSE46665 | 0.002754 | Sample_5_7 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_5_7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275444 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117505 |
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1 | time: 180 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133673 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117506,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275445 | GSM1133673 | GSE46665 | 0.003271 | Sample_5_180 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_5_180 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275445 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117506 |
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1 | time: pre-LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133674 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117515,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275446 | GSM1133674 | GSE46665 | 0.001813 | Sample_6_0 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_6_0 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275446 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117515 |
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1 | time: 7 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133675 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117516,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275447 | GSM1133675 | GSE46665 | 0.000888 | Sample_6_7 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_6_7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275447 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117516 |
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1 | time: 180 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133676 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117507,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275448 | GSM1133676 | GSE46665 | 0.003018 | Sample_6_180 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_6_180 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275448 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117507 |
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1 | time: pre-LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133677 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117508,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275449 | GSM1133677 | GSE46665 | 0.004544 | Sample_7_0 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_7_0 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275449 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117508 |
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1 | time: 7 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133678 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117513,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275450 | GSM1133678 | GSE46665 | 0.00256 | Sample_7_7 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_7_7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275450 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117513 |
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1 | time: pre-LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133679 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117514,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275451 | GSM1133679 | GSE46665 | 0.001233 | Sample_8_0 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_8_0 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275451 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117514 |
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1 | time: 7 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133680 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117509,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275452 | GSM1133680 | GSE46665 | 0.005649 | Sample_8_7 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_8_7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275452 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117509 |
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1 | time: 180 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133681 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117510,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275453 | GSM1133681 | GSE46665 | 0.002855 | Sample_8_180 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_8_180 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275453 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117510 |
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1 | time: pre-LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133682 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117511,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275454 | GSM1133682 | GSE46665 | 0.002196 | Sample_9_0 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_9_0 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275454 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117511 |
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1 | time: 7 days post LVAD,tissue: whole blood | 20040 Cottagewood Ave | Excelsior | USA | Minnesota Informatics | Rod,A.,Staggs | Libraries were sequenced to 100 nucleotide lengths on Illumina HiSeq2000 using RTA (real-time analysis) for image analysis, base calling, and data filtering.,Casava 1.8.0 was used to demultiplex and generate fastq files for each patient index.,Image analysis, base calling, and base call quality calibration were done using the Real Time Analysis software (Illumina).,Alignment and transcript abundance estimates generated with Tophat and Cufflinks software suite.,Genome_build: Ensembl GRCh37.66,Supplementary_files_format_and_content: bed file format of Tophat alignments | RNA extraction from whole blood was carried out per the manufacturerâs instructions using the PreAnalytiX PAXgene Blood RNA Kit, Version 2 from Qiagen.,Libraries were created using the Illumina TruSeq RNA Sample Preparation kit. | GSM1133683 | Illumina HiSeq 2000 | May 15 2019 | cDNA | transcriptomic | RNA-Seq | total RNA | Homo sapiens | GPL11154 | BioSample: https://www.ncbi.nlm.nih.gov/biosample/SAMN02117512,SRA: https://www.ncbi.nlm.nih.gov/sra?term=SRX275455 | GSM1133683 | GSE46665 | 0.000949 | Sample_9_7 | Public on May 06 2013 | May 06 2013 | 9606 | Sample_9_7 | SRA | https://www.ncbi.nlm.nih.gov/sra?term=SRX275455 | https://www.ncbi.nlm.nih.gov/biosample/SAMN02117512 |