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Sample GSM4337402 Query DataSets for GSM4337402
Status Public on Sep 02, 2021
Title DL191_rnaseq
Sample type SRA
Source name CD19+ B cells
Organism Homo sapiens
Characteristics tissue: lymph node
disease state: diffuse large B cell lymphoma
Extracted molecule total RNA
Extraction protocol RNA was extracted with a Qiagen RNeasy kit.
rRNA-depleted (Ribo-Zero) libraries were prepared using TruSeq RNA Sample kits with indexed adaptors.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
Data processing bcl2fastq (v1.8.4) was used to demultiplex and convert base call files into FASTQ files.
Read quantification was performed by salmon (v0.14.1) to gencode.v31lift37 annotations with the -validateMappings and -seqBias parameters.
Differential gene expression analyses and normalized gene-level counts were generated with DESeq2 (v1.26.0).
Genome_build: hg19
Supplementary_files_format_and_content: Raw transcript counts as quantified by salmon (v0.14.1) using gencode.v31lift37 annotations. Contains transcriptID, Length, effectiveLength, TPM, and NumReads columns.
Submission date Feb 24, 2020
Last update date Sep 02, 2021
Contact name Jared Andrews
Organization name St. Jude Children's Research Hospital
Department Developmental Neurobiology
Street address 262 Danny Thomas Pl
City Memphis
State/province Tennessee
ZIP/Postal code 38105
Country USA
Platform ID GPL11154
Series (2)
GSE145842 Key Super Enhancers Drive Tumor-Suppressing Transcription Feedback Programs in Mature B Cell Cancers (RNA-seq)
GSE145848 Key Super Enhancers Drive Tumor-Suppressing Transcription Feedback Programs in Mature B Cell Cancers
BioSample SAMN14176024
SRA SRX7796007

Supplementary file Size Download File type/resource
GSM4337402_DL191_quant.sf.txt.gz 3.5 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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