|
Status |
Public on Nov 14, 2019 |
Title |
Sample 9 [hss] |
Sample type |
SRA |
|
|
Source name |
vastus lateralis muscle
|
Organism |
Homo sapiens |
Characteristics |
population: Caucasian descent sarcopenia status: no low muscle mass: yes low muscle strength and/or low physical performance: no Sex: male age (yr): 71.8 tissue: vastus lateralis muscle
|
Extracted molecule |
total RNA |
Extraction protocol |
mirVana miRNA Isolation Kit (Life Technologies). Illumina TruSeq Stranded RNA Ribo Zero Gold Kit.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Description |
Sample 9 rRNA-depleted RNA-seq Processed data file: allSamplesCounts_htseqcov1_hss_forGEO.csv
|
Data processing |
Multiplexed samples were demultiplexed using the Illumina software Casava. Reads were aligned to the human genome (hs_GRCh38.p2) using STAR. The number of reads mapped within genes was quantified by HTSeq (version HTSeq-0.6.1p1, mode union, strand reverse, quality alignment greater than 10). Genome_build: hs_GRCh38.p2 Supplementary_files_format_and_content: allSamplesCounts_htseqcov1_hss_forGEO.csv: Comma-separated value file includes counts for each annotated gene (row) for each sample (column). Supplementary_files_format_and_content: lcpmy1_hss_forGEO.csv: Comma-separated value file includes log2 count per millions after discarding genes low expressed genes (defined as less than an average of 20 counts) and TMM normalization.
|
|
|
Submission date |
Feb 22, 2018 |
Last update date |
Nov 14, 2019 |
Contact name |
Jerome Feige |
Organization name |
Nestle Institute Of Health Sciences
|
Department |
Musculo-Skeletal Health
|
Street address |
EPFL Innovation Park, Building H
|
City |
Lausanne |
ZIP/Postal code |
1015 |
Country |
Switzerland |
|
|
Platform ID |
GPL16791 |
Series (2) |
GSE111006 |
Study of sarcopenia in human muscle biopsies of elderly individuals, Hertfordshire Sarcopenia Study |
GSE111017 |
Study of sarcopenia in human muscle biopsies of elderly individuals |
|
Relations |
BioSample |
SAMN08580983 |
SRA |
SRX3734193 |