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Links from GEO DataSets

Items: 20

1.
Full record GDS5675

Histone deacetylase HDAC7 re-expression effect on pre-B cell transdifferentiation into macrophages: time course

Analysis of C10 pre-B cells transduced with a vector for HDAC7 expression then treated with β-estradiol to induce transdifferentiation into macrophages for up to 72 hr. Dysregulated HDAC activity is associated with B cell malignancies. Results provide insight into role of HDAC7 in B lymphopoiesis.
Organism:
Mus musculus
Type:
Expression profiling by array, transformed count, 2 agent, 2 genotype/variation, 3 time sets
Platform:
GPL11180
Series:
GSE36827
12 Samples
Download data: CEL
2.

HDAC7 is a repressor of myeloid genes whose downregulation in pre-B cells is required for transdifferentiation into macrophages

(Submitter supplied) In the immune system HDAC7 is expressed in T cells where it regulates the expression of key genes for T cell development and function. Here we report that HDAC7 is also highly expressed in B cell precursors, where it is recruited by MEF2C to repress the activity of key genes for myeloid cell function. While HDAC7 is down-regulated during the conversion of pre-B cells into macrophages, re-expression of HDAC7 interferes with both the acquisition of the myeloid gene transcriptional program and macrophage specific cell functions. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Dataset:
GDS5675
Platform:
GPL11180
12 Samples
Download data: CEL
Series
Accession:
GSE36827
ID:
200036827
3.

The histone deacetylase HDAC7 represses lineage-inappropriate genes and is essential for proper B cell generation

(Submitter supplied) B lymphocyte development is a complex process tightly controlled at the transcriptional level by the action of networks of transcription factors. The repression of genes from alternative lineages is necessary to ensure the acquisition of the correct B cell identity. However, the mechanisms of transcriptional repression during B cell generation are largely unknown. Here, using a conditional knockout mouse model, we show that the histone deacetylase HDAC7 is essential for B cell development. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL11180
6 Samples
Download data: CEL
Series
Accession:
GSE66163
ID:
200066163
4.

Expression data from C/EBP alpha induced transdifferentiation of pre-B cells into macrophages

(Submitter supplied) Earlier work has shown that pre-B cells can be converted into macrophages by the transcription factor C/EBP? at very high frequencies. Using this system we have now performed a systematic analysis of the question whether during transdifferentiation the cells transiently reactivate progenitor restricted genes or even retrodifferentiate. A transcriptome analysis of transdifferentiating cells showed that most genes are continuously up or downregulated, acquiring a macrophage phenotype within 5 days. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
12 Samples
Download data: CEL
Series
Accession:
GSE32330
ID:
200032330
5.

Expression data from different stages of hematopoietic cells development

(Submitter supplied) 18 different population of cells in different developmental stages in hematopoietic hierarchy have been purifyed by FACS analyses from wild type C57Bl6 mice and subjected to Micrroarray Affymetrix mouse 430.2 platform We used microarrays to compare global expression pattern in different hematopoietic cell populations to reconstruct the whole hierarchy of hematopoietic tree based on gene profiling Keywords: Hematopoietic Development
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
47 Samples
Download data: CEL
Series
Accession:
GSE14833
ID:
200014833
6.

The transcription repressors Bach2 and Bach1 promote B cell development by repressing the myeloid program

(Submitter supplied) Mature lymphoid cells express the transcriptional repressor Bach2, which imposes regulation on humoral and cellular immunity. Here we found critical roles for Bach2 in the development of cells of the B lineage, commencing from the common lymphoid progenitor (CLP) stage, with Bach1 as an auxiliary. Overexpression of Bach2 in pre-pro-B cells deficient in the transcription factor EBF1 and single-cell analysis of CLPs revealed that Bach2 and Bach1 repressed the expression of genes important for myeloid cells (‘myeloid genes’). more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL13912
21 Samples
Download data: TXT
Series
Accession:
GSE61409
ID:
200061409
7.

Tet2 facilitates the de-repression of myeloid target genes during C/EBPa induced transdifferentiation of pre-B cells

(Submitter supplied) Tet2 is an enzyme that hydroxylates methylated cytosines and has been implicated in hematopoietic differentiation and the formation of myeloid malignancies when mutated. An ideal system to study the role of Tet2 in myelopoeisis is C/EBPa induced transdifferentiation of pre-B cells into macrophages, where many myeloid genes become rapidly upregulated. Here we found that C/EBPa binds to upstream regions of Tet2 and that the gene becomes activated. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL10333
8 Samples
Download data: TXT
Series
Accession:
GSE39666
ID:
200039666
8.

Gene Regulation by HDAC7 in Thymic Selection

(Submitter supplied) Histone deacetylase 7 (HDAC7) is highly expressed in CD4+/CD8+ thymocytes and functions as a signal-dependent repressor of gene transcription during T cell development. In this study, we express HDAC7 mutant proteins in a T cell line and use DNA microarrays to identify transcriptional targets of HDAC7 in T cells. Gene expression changes are compared to differential gene expression profiles associated with positive and negative thymic selection. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL5064
74 Samples
Download data: GPR
Series
Accession:
GSE7468
ID:
200007468
9.

Bi-phenotypic B-lymphoid/myeloid cells expressing low levels of Pax5 - potential targets of BAL development

(Submitter supplied) Retroviral transduction of Pax5-deficient pro/preB cell lines with a doxycycline-inducible (TetON) form of the human Pax5 (huPax5) gene yielded cell clones which could be induced to different levels of huPax5 expression. Clones inducible to high levels developed B220+/CD19/+IgM+ B cells, while clones with low levels differentiated to B220+/CD19- /CD11b+/Gr-1- B-lymphoid/myeloid “bi-phenotypic” cells in vitro and in vivo. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL2872
8 Samples
Download data: TXT
Series
Accession:
GSE33875
ID:
200033875
10.

Stage-specific control of early B cell development by the transcription factor Ikaros

(Submitter supplied) Ikaros is an essential regulator of lymphopoiesis. Here, we studied the B-cell-specific function of Ikaros by conditional Ikzf1 inactivation in pro-B cells. B-cell development was arrested at an aberrant ‘pro-B’ cell stage characterized by increased cell adhesion and loss of pre-B cell receptor signaling. Ikaros was found to activate genes coding for pre-BCR signal transducers and to repress genes involved in the downregulation of pre-BCR signaling and upregulation of the integrin signaling pathway. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL13112 GPL11002
48 Samples
Download data: BW, TXT
Series
Accession:
GSE53595
ID:
200053595
11.

SCL knockouts in mouse megakaryocytes

(Submitter supplied) The bHLH transcription factor stem cell leukemia gene (Scl) is a master regulator for hematopoiesis essential for hematopoietic specification and proper differentiation of the erythroid and megakaryocyte lineages. However, the critical downstream targets of Scl remain undefined. Here, we identified a novel Scl target gene, transcription factor myocyte enhancer factor 2 C (Mef2C) from Sclfl/fl fetal liver progenitor cell lines. more...
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL1261
7 Samples
Download data: CEL
Series
Accession:
GSE14478
ID:
200014478
12.

Logical modelling of lymphoid and myeloid cell specification and trans-differentiation [ChIPseq]

(Submitter supplied) To identify nez putative transcriptionnal regulations controlling the specification of B cell and Macrophage, we performed ChIPSeq in a pre-B cell line containing an inducible form of the transcription factor C/EBPa (C10). We performed ChIP-seq against Foxo1 in uninduced b cell, and for Ebf1 in uninduced or after several times of C/EBPa induction.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
5 Samples
Download data: BW
Series
Accession:
GSE86420
ID:
200086420
13.

Genome-wide analysis of histone 3 lysine K27 acetylation and differential expression analysis in stem-like breast cancer cells in response to HDAC1/3/7 inhibition or knockdown

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
18 Samples
Download data: BIGWIG, TXT
Series
Accession:
GSE131632
ID:
200131632
14.

Next Generation Sequencing and differential expression analysis in stem-like vs. non-stem breast cancer cells in response to HDAC1 and HDAC7 knockdown

(Submitter supplied) Purpose: We performed RNA-seq differential expression analysis after 72h HDAC1 and HDAC7 knockdown in order to evaluate the transcriptional regulation exerted by HDAC1 and HDAC7 in a stem-like (BPLER) vs. non-stem (HMLER) breast cancer (BrCa) cell model (please search for keywords "BPLER" or "HMLER" in GEO to access over 240 associated data sets). Results: HDAC7 knockdown by a pool of siRNAs resulted in altered expression of nearly three times the genes in BPLER vs. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
14 Samples
Download data: TXT
Series
Accession:
GSE131631
ID:
200131631
15.

Genome-wide analysis of histone 3 lysine K27 acetylation in stem-like breast cancer cells in response to HDAC1/3/7 inhibition.

(Submitter supplied) We sought to investigate the effects of HDAC1 and HDAC7 inhibition on genome-wide histone 3 lysine 27 acetylation (H3K27ac) in BPLER cells, a stem-like breast cancer (BrCa) cell model (please search for keyword "BPLER" in GEO to access over 30 associated datasets). Treatment of BPLER cells with MS-275 (Entinostat), a HDAC1 and HDAC3 specific inhibitor, specifically downregulates HDAC7 mRNA and protein. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
4 Samples
Download data: BIGWIG, TXT
Series
Accession:
GSE131436
ID:
200131436
16.

Gene expression in mouse primary pre-B cells transduced with Ikaros

(Submitter supplied) Ikaros family DNA binding proteins are critical regulators of B cell development. To identify Ikaros-regulated genes in primary pre-B cells we performed gene expression microarrays.
Organism:
Mus musculus
Type:
Expression profiling by array
Platform:
GPL6246
6 Samples
Download data: CEL
Series
Accession:
GSE42551
ID:
200042551
17.

Genome-wide identification of Ikaros binding sites in primary pre-B cells

(Submitter supplied) Ikaros DNA binding proteins are important regulators of haematopoiesis and genetic deletion of Ikaros results in severe developmental disturbances, including delayed thymocyte differentiation and an early and complete block in B cell development. Although Ikaros ChIP-seq data are available for mouse thymocytes and human haematopoietic progenitors, it has not been achieved in B cell progenitors. The goal of this study was to identify Ikaros binding sites in pre-B cells to define Ikaros target genes which could explain the essential role of Ikaros proteins in B cell differentiation.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9250
4 Samples
Download data: BED
Series
Accession:
GSE42462
ID:
200042462
18.

Ikaros target genes in the mouse pre-B cell line B3

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL1261 GPL9250 GPL6246
30 Samples
Download data: BED, CEL
Series
Accession:
GSE38200
ID:
200038200
19.

Genome-wide identification of Ikaros binding sites in pre-B cells

(Submitter supplied) Ikaros DNA binding proteins are important regulators of haematopoiesis and genetic deletion of Ikaros results in severe developmental disturbances, including delayed thymocyte differentiation and an early and complete block in B cell development. Although Ikaros ChIP-seq data are available for mouse thymocytes and human haematopoietic progenitors, it has not been achieved in B cell progenitors. The goal of this study was to identify Ikaros binding sites in pre-B cells to define Ikaros target genes which could explain the essential role of Ikaros proteins in B cell differentiation.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9250
7 Samples
Download data: BED
Series
Accession:
GSE38169
ID:
200038169
20.

Gene expression in mouse pre-B cells transduced with Ikaros.

(Submitter supplied) Ikaros family DNA binding proteins are critical regulators of B cell development. To identify Ikaros-regulated genes in pre-B cells we performed gene expression studies at enhanced temporal resolution.
Organism:
Mus musculus
Type:
Expression profiling by array
Platforms:
GPL1261 GPL6246
13 Samples
Download data: CEL
Series
Accession:
GSE38110
ID:
200038110
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