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Sample GSM2861420 Query DataSets for GSM2861420
Status Public on Jan 30, 2018
Title 5wo male #2
Sample type SRA
 
Source name Thymus
Organism Mus musculus
Characteristics cell type: CD19+ thymic B cells
age: 5 weeks
strain: C57BL/6J
Treatment protocol Thymocytes were stained with CD19-APC, tagged with anti-APC magnetic beads (Miltenyi Biotec) and magnetically enriched. CD19+ were sorted from enriched samples using BD FACS Aria to a minimum purity of 98.5% or better.
Growth protocol Animals kept in SPF conditions
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from sorted B cells using Invitrogen RNAaqueous micro kit
RNA libraries were prepared using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Description Young male
Data processing Illumina Casava v1.8.2 software used for base-calling
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to mm9 whole genome using TopHat v2.0.8b
gene count measurements were obtained using HTSeq-count
Genome_build: UCSC mm9
Supplementary_files_format_and_content: The processed data files are in tabular format. The first column contains the gene symbols and the second column contain the read counts of the gene using htseq-count
 
Submission date Nov 17, 2017
Last update date May 15, 2019
Contact name Yidong Chen
E-mail(s) cheny8@uthscsa.edu
Phone 2105629163
Organization name UT Health Science Center at San Antonio
Department Population Health Sciences
Street address 8403 Floyd Curl Drive, MSC 7784
City San Antonio
State/province Texas
ZIP/Postal code 78229
Country USA
 
Platform ID GPL21493
Series (2)
GSE107110 RNA-sequencing of bulk CD19+ Thymic B cells from young (5 week) and aged (10-24 month) mice
GSE107112 RNA-sequencing of bulk CD19+ Thymic B cells from mice and humans
Relations
SRA SRX3405798
BioSample SAMN08045303

Supplementary file Size Download File type/resource
GSM2861420_Sample_Bcells_5wo_male_2_Genes_ReadCount.txt.gz 123.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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