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High-throughput expression profiling of OCI-Ly3 cell line upon treatment with a panel of 14 known drugs.

ABSTRACT: Analysis of Diffuse Large B-Cell Lymphoma (DLBCL) OCI-LY3 cell line treated with 14 different known drugs at 2 different concentrations and profiled at 6, 12 and 24 hrs after treatment. We used this gene expression data to design a challenge where participants were required to develop methods to predict activity of compound pairs using gene expression profile following single compound treatment, drug response curve of each compound and baseline genetic profile of OCI-LY3 cell line.

ORGANISM(S): Homo sapiens

PROVIDER: GSE51068 | GEO | 2014/09/25

SECONDARY ACCESSION(S): PRJNA220987

REPOSITORIES: GEO

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High-throughput expression profiling of OCI-Ly3 cell line upon treatment with a panel of 14 known drugs.

Project description:Analysis of Diffuse Large B-Cell Lymphoma (DLBCL) OCI-LY3 cell line treated with 14 different known drugs at 2 different concentrations and profiled at 6, 12 and 24 hrs after treatment. We used this gene expression data to design a challenge where participants were required to develop methods to predict activity of compound pairs using gene expression profile following single compound treatment, drug response curve of each compound and baseline genetic profile of OCI-LY3 cell line. GeneChip HT HG-U219 array plates were used to analyze gene expression changes induced by treatment with 14 drug compounds in OCI-Ly3 cells at 6, 12 and 24h. 3 replicates were analyxed for each drug/time combination. Vehicle (DMSO)-treated control samples were used for comparison with each replicate. Altogether 282 samples were analyzed in this study.

2014-09-25 | E-GEOD-51068 | biostudies-arrayexpress

Methylation status of OCI Ly3 SP vs. nonSP

Project description:Promotor methylation status of Side Population cells of DLBCL cell line OCI Ly3 was compared to non Side Population Cells of OCI Ly3

2013-12-07 | GSE53043 | GEO

Methylation status of OCI Ly3 SP vs. nonSP

Project description:Promotor methylation status of Side Population cells of DLBCL cell line OCI Ly3 was compared to non Side Population Cells of OCI Ly3 DLBCL Cell Line OCI Ly3 was cultured and stained using Hoechst33342. FACS analysis showed a distinct Side Population. Side Population Cells and non Side Population cells were sorted, gDNA was extracted and Methylation analysis was performed using Illumin 27k Bead Array.

2013-12-07 | E-GEOD-53043 | biostudies-arrayexpress

Expression data from OCI Ly3 SP vs. nonSP cells

Project description:Gene expression profile OCI Ly3 Side Population Cells vs non Side Population

2013-12-07 | GSE53032 | GEO

Expression data from OCI Ly3 SP vs. nonSP cells

Project description:Gene expression profile OCI Ly3 Side Population Cells vs non Side Population OCI Ly3 cells were cultured and stained with Hoechst33342. FACS analysis identified a distinct Side Population. Side Population Cells were sorted separatly from nonSide Population cells. We used microarray analysis to identify differentialy expressed genes.

2013-12-07 | E-GEOD-53032 | biostudies-arrayexpress

Genome wide CRISPR screen for CG-806 resistance in OCI-LY3 cells using Y. Kosuke library

Project description:OCI-LY3 cells were infected with CRISPR/Cas9 library, selected for puromycin resistance for integration events and exposed to CG-806 or vehicle, DMSO, at 1 microMolar concentrations. Cells were collected at time 0 (post puromycin selection) and day 7. DNA was extracted and sgRNA barcodes were amplified. PCR library was deep sequenced using highthroughput Illumina platform Novaseq 6000.

2023-05-04 | GSE174766 | GEO

SPIB and BATF provide alternate determinants of IRF4 occupancy in Diffuse Large B-cell Lymphoma linked to disease heterogeneity

2014-06-03 | GSE56857 | GEO

SPIB and BATF provide alternate determinants of IRF4 occupancy in Diffuse Large B-cell Lymphoma linked to disease heterogeneity

Project description:ChIP-seq data for the transcription factors (TFs) IRF4, PU.1 and SPIB from the cell lines OCI-LY3, OCI-LY10 and H929, and BATF from the cell lines OCI-Ly3 and OCI-Ly10. In addition ChIP-seq for the TFs IRF4, PU.1 and SPIB from the cell line OCI-LY3 following transfections of scramble/SPIB-siRNA. ChIP-seq data for the transcription factors (TFs) IRF4, PU.1 and SPIB from the cell lines OCI-LY3, OCI-LY10 and H929, and BATF from the cell lines OCI-Ly3 and OCI-Ly10. In addition ChIP-seq for the TFs IRF4, PU.1 and SPIB from the cell line OCI-LY3 following transfections of scramble/SPIB-siRNA.

2014-06-03 | E-GEOD-56857 | biostudies-arrayexpress

NF-kB suppresses genomic instability in non-Hodgkin lymphomas

Project description:Oci-Ly3 and Daudi cell lines expressing p100-, p105- and luciferase-siRNA were used to identify genes that are regulated by p100 or p105 in each cell line.

2010-09-10 | GSE24020 | GEO

Transcriptomic Profile of OCI-AML-20 Cell Line

Project description:Transcriptomic Profile of OCI-AML-20 Cell Line

| PRJNA494672 | ENA