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Sample GSM3684498 Query DataSets for GSM3684498
Status Public on Aug 20, 2020
Title nb7: E16 HSC-1 RNA-seq
Sample type SRA
 
Source name Hematopoietic stem cell
Organism Mus musculus
Characteristics tissue: Hematopoietic stem cell
age: E16.5
Extracted molecule total RNA
Extraction protocol Qiagen RNAeasy micro plus
Clontech SMRTr
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Data processing The resulting sequencing reads were demultiplexed by index with a custom Python demultiplexing script and further demultiplexed by barcode with a custom Perl demultiplexing script.
The RNA-Seq reads were then aligned to the Mus musculus Ensembl release 76 top-level assembly with STAR version 3.0.4.b.
Gene counts were derived from the number of uniquely aligned unambiguous reads by Subread:featureCount version 1.4.5.
Sailfish version 0.6.3. was used to produce isoform estimated counts.
Genome_build: Ensemble R76
Supplementary_files_format_and_content: tab-delimited text files include read count values for each Sample
 
Submission date Mar 24, 2019
Last update date Aug 20, 2020
Contact name Jeffery Magee
E-mail(s) magee_j@kids.wustl.edu
Organization name Washington University School of Medicine
Department Internal Medicine - Cardiovascular Division
Street address 660 S Euclid Ave.
City St Louis
State/province Missouri
ZIP/Postal code 63110
Country USA
 
Platform ID GPL21493
Series (2)
GSE128759 Neonatal hematopoietic stem and progenitor cell ontogeny at single cell resolution (RNA-seq)
GSE128762 Neonatal hematopoietic stem and progenitor cell ontogeny at single cell resolution
Relations
BioSample SAMN11245148
SRA SRX5565507

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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