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NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [WGS]

ABSTRACT: Whole genome sequencing (WGS) of MCF-10A cells without or with NFIB overexpression cultured at 30 or 75 days and 5-fluoracil-resistant or oxaliplatin-resistant MCF-10A cells with NFIB overexpression cultured at 75 days to investigate whether the oncogenic potential of NFIB is linked to its function in replication initiation.

ORGANISM(S): Homo sapiens

PROVIDER: GSE201866 | GEO | 2023/08/22

REPOSITORIES: GEO

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NFIB is a driver of SCLC initiation, progression and metastasis in mouse and marks metastatic disease in patients

Project description:Small Cell Lung Cancer (SCLC) is the most aggressive type of lung cancer with early metastatic dissemination and invariable development of resistant disease for which no effective treatment is available to date. Mouse models of SCLC based on inactivation of Rb1 and Trp53 developed earlier showed frequent amplifications of two transcription factor genes: Nfib and Mycl. Overexpression of Nfib but not Mycl in SCLC mouse results in an enhanced and altered metastatic profile, and appears to be associated with genomic instability. NFIB promotes tumor heterogeneity with the concomitant expansive growth of poorly differentiated, highly proliferative, and invasive tumor cell populations. Consistent with the mouse data, NFIB expression in high-grade human neuroendocrine carcinomas correlates with advanced stage III/IV disease warranting its further assessment as a potentially valuable progression marker in a clinical setting. Genomic DNA from mouse small cell lung tumor samples was analyzed by mate pair sequencing and low coverage sequencing. And RNA from Nfib overexpressing mouse small cell lung cancer cell lines was further analyzed for high quality RNA profiles using Illumina Hiseq2500. This series contains only RNA-seq data.

2016-07-29 | E-GEOD-82005 | biostudies-arrayexpress

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [CUT&TAG]

Project description:Genome-wide binding profile of NFIB and ORC1 in G1 phase of U2OS cells without or with NFIB depletion were profiled using cleavage under targets and tagmentation sequencing (CUT&Tag-seq).

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NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [Micro-C]

Project description:Micro-C performed on U2OS cells without or with NFIB depletion at G1/S phase and S phase to investigate the effect of NFIB on higher-order chromatin structure during DNA replication.

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NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [Repli-seq]

Project description:Genome-wide DNA replication profiles of U2OS cells without or with NFIB depletion.

2023-08-22 | GSE223441 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [NS-seq]

Project description:Nascent strand sequencing (NS-seq) in U2OS cells without or with NFIB depletion to identify de facto activated replication origins.

2023-08-22 | GSE201865 | GEO

NFIB is a driver of SCLC initiation, progression and metastasis in mouse and marks metastatic disease in patients

2016-07-29 | GSE82005 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [H3K9me3 CUT&Tag]

Project description:Genome-wide profiling of histone H3K9me3 of G1 or S phase U2OS cells without or with NFIB depletion.

2023-08-22 | GSE223440 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [H3K4me3 CUT&Tag]

Project description:Genome-wide profiling of histone H3K4me3 of G1 or S phase U2OS cells without or with NFIB depletion.

2023-08-22 | GSE223438 | GEO

NFIB Is a Pioneer Factor for DNA Replication by Acting as a Genome Organizer [ATAC-seq]

Project description:Chromatin accessibility of G1 phase of U2OS cells without or with NFIB depletion were profiled using transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) to identify potential regulatory elements.

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Pregnancy-induced gene expression and differentiation of mouse mammary epithelium are co-governed by Nuclear Factor IB (NFIB) and STAT5

Project description:Cytokines control the expression of common and cell-specific genes through the transcription factor STAT5. In mammary tissue specifically, expression of approximately 570 genes is induced during pregnancy by prolactin through STAT5, which binds to putative regulatory sequences. We have now asked whether mammary-specific induction of these genes can be linked to the presence of additional transcription factors, which would act in concert with STAT5. RNA-seq analysis at parturition identified 370 genes that were under NFIB control. Notably, 75% of these genes, encoding proteins linked to the differentiation of mammary epithelium, were also regulated by STAT5. This study demonstrates that the STAT5-NFIB module is an essential part of genes that define differentiation and function of the mammary gland. Expression profiling by high throughput sequencing in wild-type (WT) and Nfib-null (KO) mammary gland tissues

2012-12-13 | E-GEOD-42878 | biostudies-arrayexpress

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