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Series GSE83150 Query DataSets for GSE83150
Status Public on Jun 10, 2016
Title CXCL12 Stimulation of CXCR4-WHIM Transduced Waldenstrom's Macroglobulinemia cell line BCWM.1
Organism Homo sapiens
Experiment type Expression profiling by array
Summary CXCR4 cDNA transcripts were subcloned into plenti-IRES-GFP vectors, and stably transduced using a lentiviral system In addition to wild-type CXCR4, vectors with the mutations c.1013C>G (p.Ser338*), c.932_933insT (p.Thr311fs), and c.1030_1041delinsGT (p.Ser344fs) were generated.
Cell lines were stimulated with 50nM of the CXCR4 ligand CXCL12 (SDF1A) (R&D Systems, Minneapolis MN) for two hours. RNA from each sample was extracted at baseline and at 2 hours.
 
Overall design At baseline and following stimulation, RNA was extracted and processed for analysis using Affymetrix Human Gene ST 2.0 arrays (Affymetrix, Santa Clara, CA). Data was analyzed using Oligo and Limma bioconductor packages in R using TMM normalization.
 
Contributor(s) Hunter Z, Treon S
Citation(s) 27301862
Submission date Jun 09, 2016
Last update date Mar 15, 2019
Contact name Zachary Richard Hunter
Organization name Dana-Farber Cancer Institute
Lab Bing Center for Waldenstrom's Macroglobulinemia
Street address 450 Brookline Ave, Mayer 544
City Boston
State/province MA
ZIP/Postal code 02215
Country USA
 
Platforms (1)
GPL16686 [HuGene-2_0-st] Affymetrix Human Gene 2.0 ST Array [transcript (gene) version]
Samples (24)
GSM2195565 CXCR4 wild-type baseline replicate 1
GSM2195566 CXCR4 wild-type baseline replicate 2
GSM2195567 CXCR4 wild-type baseline replicate 3
Relations
BioProject PRJNA325279

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE83150_RAW.tar 191.5 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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