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Genome-wide DHS study to unravel the function of EBF1 C-terminus domain

ABSTRACT: To study the function of the C-terminus domain, DnaseI hypersensitivity assay was performed by transducing Empty, Ebf1wt and Ebf1ΔC expressing vectors into Ebf1-/- progenitor cells.

ORGANISM(S): Mus musculus

PROVIDER: GSE79141 | GEO | 2016/05/09

SECONDARY ACCESSION(S): PRJNA315007

REPOSITORIES: GEO

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Microarray analysis to unravel the function of C-terminus domain of EBF1 by gain-of function approach

Project description:To study the function of C-terminus domain of EBF1, a gain-of function microarray analysis was performed by transducing Empty, Ebf1wt and Ebf1DC expressing vectors into Ebf1-/- progenitor cells.

2016-05-09 | GSE78842 | GEO

Microarray analysis to unravel the function of C-terminus domain of EBF1 by replacement approach

Project description:To unravel the function of C-terminus domain of EBF1, a replacement microarray analysis was performed by transducing Ebf1wt and Ebf1DC expressing vectors intoA-MuLV transformed pro-B (Ebf1fl/fl;RERTCre) cells.

2016-05-09 | GSE78843 | GEO

Genome-wide map of DNA methylation to unravel the function of EBF1 C-terminus domain

Project description:To study the function of the C-terminus domain, DNA methylation status was profiled in Empty, Ebf1wt and Ebf1DC transduced Ebf1-/- progenitor cells.

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Genome-wide occupancy of EBF1-wt & EBF1-H240A

Project description:To study the function of EBF1-H240 residue, genome-wide EBF1 ChIP was performed in A-MuLV transformed pro-B (Ebf1fl/fl;RERTCre) cells transduced with Ebf1wt and Ebf1H240A expressing vectors.

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Genome-wide map of EBF1, H3K4me2 and H3K27me3 marks to unravel the EBF1 C-terminus domain function

Project description:To study the function of C-terminus domain, EBF1, H3K4me2 and H3K27me3 ChIP was performed

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Gene expression profile of EBF1-wt & EBF1-H240A

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EBF1 ChIP-seq after NICD1 induction

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Characterizing the profiles of Ebf1 in mouse fat cells.

Project description:gene expression data from mouse adipocyte, with and without Ebf1 knock-down To ascertain the functional targets of Ebf1 in adipocytes, we depleted Ebf1 from mature 3T3-L1 cells by transducing them with lentivirus harboring one of two different Ebf1-specific hairpins or a scrambled control. We then performed expression profiling using Affymetrix arrays with triplicate samples for each hairpin.

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Single-cell RNASeq analysis to unravel molecular networks driving leukemia in Ebf1+/-Pax5+/- (dHet) B-ALL mice

Project description:Here, we report that EBF1 and Pax5 collaborate in a dose-dependent manner to regulate the IL-7-STAT5 signaling pathway and one-carbon metabolism, whereby we found both diminished and enhanced binding of EBF1 and Pax5 to target genes in compound heterozygous mutant mice. Moreover, single-cell RNA sequencing analysis identified a small subset of wild-type pro-B cells on the trajectory to pre-B cells that share gene expression signatures with leukemic Ebf1+/−Pax5+/− pro-B cells. Thus, a normal expression level of EBF1 and Pax5 is required for safeguarding a potentially vulnerable pro-Bcell subset from a transformation to B-ALL.

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A comprehensive Proteomic Investigation of Ebf1 Heterozygosity in pro-B lymphocytes utilizing Data Independent Acquisition

Project description:Early B cell factor 1 (EBF1) is one of the key transcription factors required for orchestrating B-cell lineage development. Although studies have shown that Ebf1 haploinsufficiency is involved in the development of leukemia, no study has been conducted that characterizes the global effect of Ebf1 heterozygosity on the proteome of pro-B lymphocytes. Here, we employ both DIA (Data Independent Acquisition) and shotgun DDA (Data Dependent Acquisition) workflows for profiling proteins that are differently expressed between Ebf1+/+ and Ebf1+/- cells. Both DDA and DIA were able to reveal the downregulation of the EBF1 transcription factor in Ebf1+/- pro-B lymphocytes. Further examination of differentially expressed proteins by DIA revealed that, similar to EBF1, the expression of other B-cell lineage regulators, such as TCF3 and Pax5, is also down-regulated in Ebf1 heterozygous cells. Functional DIA analysis of differentially expressed proteins showed that EBF1 heterozygosity resulted in the deregulation of at least 8 transcription factors involved in lymphopoiesis, and to the deregulation of key proteins playing crucial roles in survival, development and differentiation of pro-B lymphocytes.

2017-12-20 | PXD008396 | Pride

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