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Sample GSM3362006 Query DataSets for GSM3362006
Status Public on Apr 09, 2020
Title HIV1 IgG+ Memory B Cells
Sample type SRA
 
Source name Lymph node
Organism Homo sapiens
Characteristics cell type: IgG switched Memory B Cell
infection: HIV-infected
donor: HIV1
Extracted molecule total RNA
Extraction protocol Cells were FACS sorted directly into Trizol LS and RNA was isolated using the Zymo Clean and Concentrator kit
Libraries were constructed using the NuGen Ovation SoLo RNA-seq system per the manufacturer's instructions
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model NextSeq 550
 
Description HIV1:IgGMemory_HIV
Data processing bcl files were converted to FASTQ using bcl2fastq v 2.17.1.14
Reads were mapped and counted using STAR v2.5.2
Variance stabilized gene counts and differential gene expression was determined by DEseq2
Genome_build: UCSC hg19
Supplementary_files_format_and_content: tab-delimited text file contains raw read counts for all samples
 
Submission date Aug 30, 2018
Last update date Apr 10, 2020
Contact name James Wesley Austin
Organization name NIH
Street address 9000 Rockville Pike, Bldg 10, Room 6A05
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platform ID GPL21697
Series (1)
GSE119234 Analysis of gene expression differences in lymph node B cell populations of HIV-infected and uninfected controls
Relations
BioSample SAMN09936805
SRA SRX4624415

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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