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Sample GSM2650849 Query DataSets for GSM2650849
Status Public on Jun 04, 2020
Title WEYTO1.ETWE020
Sample type SRA
 
Source name blood
Organism Homo sapiens
Characteristics tissue: blood
ethnicity: WEYTO
subsistence: Hunter-Gatherer
Treatment protocol PBMCs collected on Ambion LeukoLOCK filters bathed in RNAlater and frozen at -80 degrees
Extracted molecule total RNA
Extraction protocol Whole blood, modified Trizol/ Cartridge isolation from Ambion.
Poly(A) selection by MicroPoly(A) Purist Kit AM1919 from Ambion.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing CASAVA (v1.8.1) was used to demultiplex pooled samples and convert BCL to FASTQ.
RNA-Seq data were aligned to the human genome build hg19 by STAR-2.5.1b.
Data were normalized at the gene-level, using a resampling strategy PORT (v0.8.1-beta), the code is available at https://github.com/itmat/Normalization
Genome_build: hg19 (ensemblv75)
Supplementary_files_format_and_content: tab-delimited text file from gene-level normalization contains counts from unique reads that only map to one gene.
 
Submission date Jun 06, 2017
Last update date Jun 04, 2020
Contact name Gregory Robert Grant
E-mail(s) ggrant@upenn.edu
Phone 215-573-3736
Organization name University of Pennsylvania
Department Genetics
Lab ITMAT Bioinformatics
Street address 3400 Civic Center Blvd.
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platform ID GPL11154
Series (1)
GSE99719 Transcriptome Diversity Associated with Ancestry and Diet in Ethnically Diverse East African Populations
Relations
BioSample SAMN07197386
SRA SRX2885509

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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