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Sample GSM4337622 Query DataSets for GSM4337622
Status Public on Sep 02, 2021
Title CLL144_snp
Sample type genomic
 
Source name CD19+ B cells
Organism Homo sapiens
Characteristics tissue: peripheral blood
disease state: chronic lymphocytic leukemia
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted from sorted B CD19+ B cells using a Qiagen Dneasy Blood and Tissue kit.
Label Biotin
Label protocol Per manufacturer's instructions
 
Hybridization protocol 0.5 ug of DNA was hybridized according to manufacturer's instructions.
Scan protocol GS3000
Data processing Genotypes were called from CEL files using the Affymetrix Genotyping Console (v4.2.0.26) with the BIRDSEED v2 algorithm with default settings. Copy number analysis was performed with the Affymetrix Genotyping Console using regional GC correction and default settings. The DNAcopy R package was used for circular binary segmentation on raw data. cnvkit and the copynumber R package were used for CNV thresholding using log2 ratio values of -0.2 and 0.2.
 
Submission date Feb 24, 2020
Last update date Sep 02, 2021
Contact name Jared Andrews
E-mail(s) jared.andrews@stjude.org
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 GPL6801
Series (2)
GSE145846 Key Super Enhancers Drive Tumor-Suppressing Transcription Feedback Programs in Mature B Cell Cancers (SNP array)
GSE145848 Key Super Enhancers Drive Tumor-Suppressing Transcription Feedback Programs in Mature B Cell Cancers

Supplementary file Size Download File type/resource
GSM4337622_CLL144.CEL.gz 29.9 Mb (ftp)(http) CEL
GSM4337622_CLL144.CHP.gz 13.4 Mb (ftp)(http) CHP
Processed data provided as supplementary file
Processed data are available on Series record

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