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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Chip-chip from human diffuse large B cell lymphoma cell lines with IRF8

ABSTRACT: IRF8, a transcriptional factor, has the heightened expression in germinal center(GC) B cell and GC-origin B cell lymphoma. To identify IRF8 direct targets in GC B cells, ChIP-chip ananlysis was done in three different GC-origin diffuse large B cell lymphoma cell lines. IRF8-negative cell lines, MMS1, was also used as a negatvie control. IRF8 ChIP in three different cell lines (ODH1, VAL and LY1:high level of IRF8) and in one negative control cell lines (MMS1:negatvie for IRF8). Total four different samples. One sample per a set of two arrays (promoter1 and promoter2).

ORGANISM(S): Homo sapiens

SUBMITTER: Dong-Mi Shin

PROVIDER: E-GEOD-30357 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Chip-chip from mouse diffuse large B cell lymphoma cell lines with IRF8

Project description:IRF8, a transcriptional factor, has the heightened expression in germinal center(GC) B cell and GC-origin B cell lymphoma. To identify IRF8 direct targets in GC B cells, ChIP-chip ananlysis was done in three different GC-origin diffuse large B cell lymphoma cell lines. IRF8-negative cell lines, MPC11, was also used as a negatvie control. IRF8 ChIP in three different cell lines (NFS201, NFS202 and NFS205:high level of IRF8) and in one negative control cell lines(MPC11:negatvie for IRF8). Total four different samples. One sample per a set of two arrays (promoter1 and promoter2).

2011-10-14 | E-GEOD-30519 | biostudies-arrayexpress

Chip-chip from mouse diffuse large B cell lymphoma cell lines with IRF8

2011-10-15 | GSE30519 | GEO

Chip-chip from human diffuse large B cell lymphoma cell lines with IRF8

2011-10-15 | GSE30357 | GEO

Chip-chip from mouse diffuse large B cell lymphoma cell lines with PU.1

Project description:PU.1, a transcriptional factor, is expressed in wide range of B cells from early to mature stage. To identify PU.1 direct targets in germinal center B cells, ChIP-chip ananlysis was done in three different GC-origin diffuse large B cell lymphoma cell lines. PU.1 ChIP in two different cell lines (NFS201 and NFS202:high level of PU.1) and in one negative control cell lines(NFS205:negatvie for PU.1). Total three different samples. One sample per a set of two arrays (promoter1 and promoter2).

2011-10-14 | E-GEOD-30520 | biostudies-arrayexpress

Transcriptional network governed by IRF8 and/or PU.1 in germinal center B cells

Project description:This SuperSeries is composed of the following subset Series: GSE30357: Chip-chip from human diffuse large B cell lymphoma cell lines with IRF8 GSE30358: Mouse B cell lymphoma cell lines:IRF8 knockdown cells vs. Control GSE30519: Chip-chip from mouse diffuse large B cell lymphoma cell lines with IRF8 GSE30520: Chip-chip from mouse diffuse large B cell lymphoma cell lines with PU.1 Refer to individual Series

2011-10-14 | E-GEOD-30359 | biostudies-arrayexpress

Chip-chip from mouse diffuse large B cell lymphoma cell lines with PU.1

2011-10-15 | GSE30520 | GEO

Mus musculus

Project description:Chip-chip from mouse diffuse large B cell lymphoma cell lines with IRF8

| PRJNA154753 | ENA

Homo sapiens

Project description:Chip-chip from human diffuse large B cell lymphoma cell lines with IRF8

| PRJNA154813 | ENA

Chip-chip from undifferentiated and neuron-differentiated hMSCs cells with EZH2

Project description:EZH2 plays an important role in stem cell renewal and maintenance by inducing gene silencing via its histone methyltransferase activity. Previously, we showed EZH2 downregulation markedly enhances neuron differentiation of human mesenchymal stem cells (hMSCs). To understand how EZH2 regulates neuron differentiation of hMSCs, we wanted to identify the target genes of EZH2. For this reasons we performed ChIP-on-chip experiments using specific EZH2 antibodies followed by a human promoter array for the whole human genome. The 3A6-hMSCs were differentiated into neuron for 5 days, and then 109 cells were harvested for the ChIP-on-chip assay. The procedure was based on the manufacturer's instructions (NimbleGen).

2012-12-05 | E-GEOD-42686 | biostudies-arrayexpress

Long non-coding RNA expression profiling in normal B-cell subsets and Hodgkin lymphoma reveals Hodgkin and Reed-Sternberg cell specific long non-coding RNAs

Project description:Hodgkin lymphoma (HL) is a malignancy of germinal center (GC) B-cell origin. To explore the role of long non-coding RNAs (lncRNAs) in HL, we studied lncRNA expression patterns in normal B-cell subsets, HL cell lines and tissues. Naive and memory B-cells showed a highly similar lncRNA expression pattern, distinct from GC-B cells. Significant differential expression between HL and normal GC-B cells was observed for 475 lncRNA loci. For two validated lncRNAs an enhanced expression was observed in HL, diffuse large B cell lymphoma and lymphoblastoid cell lines. For a third lncRNA, increased expression levels were observed in HL and part of Burkitt lymphoma cell lines. RNA-FISH on primary HL tissues revealed a tumor cell-specific expression pattern for all three lncRNAs. A potential cis-regulatory role was observed for 107 differentially expressed lncRNA-mRNA pairs localizing within a 60kb region. In line with a cis-acting role, we showed a preferential nuclear localization for two selected candidates. Thus, we showed dynamic lncRNA expression changes during the transit of normal B-cells through the GC reaction and widely deregulated lncRNA expression patterns in HL. Three lncRNAs showed a tumor cell-specific expression pattern in HL tissues and might therefore be of value as a biomarker.

2016-05-26 | GSE81086 | GEO

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