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Sample GSM2370122 Query DataSets for GSM2370122
Status Public on Nov 01, 2017
Title S173_DX-Lung Dx Controls-140812_I270_FCC4MR9ACXX_L1_RHUMjlxTAAORRAAPEI-206
Sample type SRA
 
Source name Blood
Organism Homo sapiens
Characteristics tissue: blood
sample_code: S173_DX
subject: 173
disease state: Lung Dx Controls
treatmentresult: NA
time: DX
timetonegativity: NA
mgit: 50
xpert: 40
tgrv: NA
Extracted molecule total RNA
Extraction protocol Paxgene RNA
GlobinClear Globin transcript reduction followed by Illumina mRNA-Seq
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Data processing Alignment STAR version STAR_2.3.1d
Sequenced reads were filtered for low-quality sequence and the presence of 'N's, then mapped to hg19 whole genome STAR_2.3.1d
Junctions counts were calculated by using an in house script to count the number of reads mapped to all splice junctions in the genome
Gene counts were calculated by usingHTSEQ to map the read counts to the gene names
Genome_build: hg19
Supplementary_files_format_and_content: tab delimited file including the raw junction counts for all the detected junctions in the genome (number of reads mapped to the splice junctions in all samples)
Supplementary_files_format_and_content: tab delimited file including the raw gene counts for all the detected genes in the genome
 
Submission date Nov 01, 2016
Last update date May 15, 2019
Contact name Daniel Zak
E-mail(s) danielzak000@gmail.com
Organization name 2Seventy Bio
Lab Data Sciences
Street address 188 East Blaine Street, Suite 300
City Seattle
State/province WA
ZIP/Postal code 98102
Country USA
 
Platform ID GPL11154
Series (1)
GSE89403 A blood RNA signature for predicting the treatment outcome in the Tuberculosis Treatment Response Cohort
Relations
BioSample SAMN05963153
SRA SRX2314877

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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