GEO DataSets

Analysis of bone marrow pre-BII cells from Aiolos/OBF-1 double null mutants. Aiolos is a chromatin regulator, OBF-1 a transcriptional activator. Small pre-BII to immature B cell transition is impaired in the double mutants. Results provide insight into the role of Aiolos and OBF-1 in pre-BII cells.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 4 genotype/variation sets

Platform:

GPL339

Series:

GSE12356

8 Samples

Download data: CEL, EXP

(Submitter supplied) The chromatin regulator Aiolos and the transcriptional coactivator OBF-1 have been implicated in regulating aspects of B cell maturation and activation. Mice lacking either of these factors have a largely normal early B cell development. However, when both factors are eliminated simultaneously a block is uncovered at the transition between pre-B and immature B cells, indicating that these proteins exert a critical function in developing B lymphocytes. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS3473

Platform:

GPL339

8 Samples

Download data: CEL, EXP

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL13112

9 Samples

Download data: BED, BIGWIG

(Submitter supplied) We examined expression of PU.1 target genes in mouse developing pro-B cells by RNA sequencing (RNA-seq). Our goal was to determine the PU.1 target genes specificly required at the pro-B cell stage in B cell development.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

6 Samples

Download data: CSV

(Submitter supplied) We examined the genomic PU.1 binding profile in mouse developing pro-B cells by using chromatin immunoprecipitation following high-throughput sequencing (ChIP-seq). Our goal was to determine the genes regulated by PU.1 specifically at the pro-B cell stage in B cell development.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL13112

3 Samples

Download data: BED, BIGWIG

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus; Homo sapiens

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL17021 GPL16791

18 Samples

Download data: BEDGRAPH, TXT

(Submitter supplied) ChIP-sequencing of human 697 cells.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL16791

8 Samples

Download data: BEDGRAPH, TXT

(Submitter supplied) The goal of this study is to compare NGS-derived mouse B cell RNA profiling in Mta2 KO, Ocab KO, and double KO mice

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17021

10 Samples

Download data: TXT

(Submitter supplied) Affymetrix GeneChip derived gene expression profiles of flow sorted murine B cell precursors, ex-vivo isolated, RNA-amplified Keywords = RNA amplification, B cell development, oligonucleotide arrays Keywords: ordered

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS52

Platforms:

GPL76 GPL75

55 Samples

Download data

Gene expression profiles of five consecutive stages of B cell development. Flow-cytometrically purified or ex vivo-isolated cells examined.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 5 cell type sets

Platform:

GPL76

Series:

GSE13

27 Samples

Download data

(Submitter supplied) Pre-B cell receptor (pre-BCR) signals initiate immunoglobulin light (Igl) chain gene assembly leading to RAG-mediated DNA double-strand breaks (DSBs). These signals also promote cell cycle entry, which could cause aberrant DSB repair and genome instability in pre-B cells. Here we show that RAG DSBs inhibit pre-BCR signals through the ATM- and NF-κB2-dependent induction of SPIC, a hematopoietic-specific transcriptional repressor. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6885

18 Samples

Download data: TXT

(Submitter supplied) B-lymphocyte differentiation is an exquisitely regulated homeostatic process resulting in continuous production of appropriately selected B cells. Relatively small changes in gene expression can result in deregulation of this process, leading acute lymphocytic leukemia, immune deficiency or autoimmunity. Translocation of Mll1 (Kmt2a) often results in a pro-B cell acute lymphocytic leukemia (B-ALL), but little is known about its role in normal B cell differentiation. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

8 Samples

Download data: CEL

(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

(Submitter supplied) OBF1, also known as Bob.1 or OCA-B, is a B lymphocyte-specific transcription factor which coactivates Oct1 and Oct2 on B cell specific promoters. So far, the function of OBF1 has been mainly identified in late stage B cell populations. The central defect of OBF1 deficient mice is a severely reduced immune response to T cell-dependent antigens and a lack of germinal center formation in the spleen. Relatively little is known about a potential function of OBF1 in developing B cells. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

13 Samples

Download data: CEL

(Submitter supplied) Three-dimensional (3D) organization of the genome is essential for precise patterns of gene expression required for biological processes, however its role in physiological aging is not known.Here we show that large scale chromatin re-organization distinguishes bone marrow progenitor (pro-) B cells of old mice from that of young mice.These changes result in increased interactions at the compartment level and reduced interactions within topologically associated domains (TADs).One genomic region that transitions from compartment A to B with age contains the gene encoding Ebf1, a key regulator of normal B cell development.Genetically reducing Ebf1 recapitulates some features of old pro-B cells.TADs that are most reduced with age also harbor genes important for function and development of pro-B cells, including the immunoglobulin heavy chain (IgH) gene locus.Weaker intra-TAD interactions at IgH correlate with reduced utilization of distally located variable gene segments in VDJ recombination.Our observations implicate 3D chromatin re-organization as a major driver of pro-B cell phenotypes that impair B lymphopoiesis with age.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other; Genome variation profiling by high throughput sequencing

Platforms:

GPL16417 GPL24247 GPL19057

76 Samples

Download data: BED, BEDPE, TXT

(Submitter supplied) ATAC-seq was performed for T-cell blasts for the following study groups: healthy controls (HC, n=6) and patients with AIOLOS E82K (n=6) and Q402X (n=1). ATAC-Seq was performed using the Active Motif ATAC-Seq Kit following the manufacturer’s protocol and sequenced using the Illumina NextSeq 2000 with 42-bp paired end reads. Using Basepair bioinformatics tools and pipelines (https://www.basepairtech.com/), reads were aligned using Bowtie2, and peaks were called with MACS2 and annotated using Homer. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL30173

13 Samples

Download data: TXT

(Submitter supplied) RNA-seq was performed using RNA extracted from EBV-immortalized B-cells for the following study groups: healthy controls (HC, n=3) and patients with AIOLOSE 82K (n=4 ). Illumina libraries were generated using the SMARTer Stranded Total RNA-Seq Kit v3 – Pico Input Mammalian Components (Takara San Jose, CA). Libraries were sequenced on a Illumina NextSeq 2000 instrument using 2 x 75 bp paired-end reads, and alignment and mapping analyses were performed by the Takara Cogent NGS Analysis Pipeline v1.5.0 (also known as CogentAP). more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30173

14 Samples

Download data: TXT