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Characterizing the TRb1 cistrome in mouse liver

ABSTRACT: ChIP-seq data from mouse liver over-expressing GFP and fed a PTU diet and treated with saline, or overexpressing biotinylated TRb1 and GFP and fed a PTU diet, treated with either saline or T3

ORGANISM(S): Mus musculus

PROVIDER: GSE52613 | GEO | 2013/12/18

SECONDARY ACCESSION(S): PRJNA229479

REPOSITORIES: GEO

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Characterizing the TRb1 cistrome in mouse liver

Project description:ChIP-seq data from mouse liver over-expressing GFP and fed a PTU diet and treated with saline, or overexpressing biotinylated TRb1 and GFP and fed a PTU diet, treated with either saline or T3 Mouse liver was infected with adenovirus that either expressed only GFP or GFP and biotinylated TRb1 and were fed a PTU diet, followed by injections with only saline (GFP-only livers) or with saline or T3 (Biotinylated-TRb1 and GFP livers). ChIP assays were performed using streptavidin agarose to capture biotinylated TRb1 followed by library construction and sequencing.

2013-12-18 | E-GEOD-52613 | biostudies-arrayexpress

Expression data from mouse liver over-expressing either GFP alone or biotinylated-TRb1 and GFP

Project description:We over-expressed biotinylated-thyroid hormone receptor beta 1 (TRb1) in mouse liver using an adenovirus in order to perform ChIP-seq experiments. These microarrays were performed to determine gene expression changes in response to tri-iodothyronine (thyroid hormone; T3) stimulation. A control GFP adenovirus was used and gene expression from these livers was also done as a comparison. We performed microarrays from Ad-GFP-infected propylthiouracil (PTU)-fed livers injected with either saline or T3 and Ad-TRb1-GFP infected livers injected with either saline or T3. RNA was extracted from livers of biotin ligase (BirA)-expressing mice that had been infected with either Ad-GFP or Ad-TRb1, fed with PTU for 3 weeks followed by saline or T3 injections for 4 consecutive days.

2013-12-18 | E-GEOD-52433 | biostudies-arrayexpress

Expression data from mouse liver over-expressing either GFP alone or biotinylated-TRb1 and GFP

2013-12-18 | GSE52433 | GEO

Biphasic expression of thyroid hormone receptor TRb1 in mammalian retina and anterior ocular tissues

Project description:Purpose: Using customized RNA-sequencing analyses to reveal notably different expression profiles of TRb1 and TRb2 in mouse retina. Method and Results: TRb2 peaks early whereas TRb1 peaks later during retinal maturation or during later differentiation. TRb1-knockout mice displayed only minor changes in opsin photopigment expression and normal electroretinogram responses, indicating that TRb2 and TRb1 are not functionally equivalent in cone differentiation. The biphasic expression patterns of TRb1 and TRb2 suggest versatile functions for thyroid hormone in retinal and non-neural ocular development.

2023-04-18 | GSE224863 | GEO

Mus musculus

Project description:Expression data from mouse liver over-expressing either GFP alone or biotinylated-TRb1 and GFP

| PRJNA228921 | ENA

Telomere Binding Protein TRB1 Preferentially Associates with Promoters of Translation Machinery genes

Project description:Background: Recently we characterised TRB1, a protein from a single-myb-histone family, as a structural and functional component of telomeres in Arabidopsis thaliana. TRB proteins, besides their ability to bind specifically telomeric DNA using their N-terminally positioned myb-like domain of the same type as in human TRF1 or TRF2 shelterin proteins, possess also histone-like domain which is involved in protein-protein interactions e.g., with POT1b. We set to investigate the genome-wide localization pattern of TRB1 to reveal its preferential mode of binding to chromatin in vivo and its potential functional roles in the genome-wide context. Results: Our results demonstrate that in addition to its roles at telomeres, TRB1 is preferentially associated with promoter regions of genes involved in ribosome biogenesis. This preference coincides with a frequent occurrence of telobox motifs in the upstream regions of genes in this category, but is not restricted to the telobox presence. Conclusions: We conclude that TRB1, in addition to its preferential telomeric localization, shows a specific genome-wide distribution pattern suggesting its role in regulation of genes involved in biogenesis of translational machinery. TRB1 DNA-binding activity investigated in 2 biological replicates (2 immunoprecipitation approaches) with controls; with technical replicates.

2015-12-21 | E-GEOD-69431 | biostudies-arrayexpress

Telomere Binding Protein TRB1 Preferentially Associates with Promoters of Translation Machinery genes

2015-12-21 | GSE69431 | GEO

Thyroid hormone action in human hepatocytes and the Cistromes of TRB1 and ChREBP in liver of mice

Project description:Human iPSC were differentiated to hepatocytes and treated with T3 or vehicle then total RNA was sequenced. The cistrome of TRB1 or ChREBP was delineated in liver of hypothyroid and hyperthyroid mice.

2021-11-16 | GSE133110 | GEO

RNAseq of GFP-sorted cells (Low-GFP vs. High-GFP, GFP-fed vs GFP+fed)

Project description:RNAseq of GFP-sorted cells (Low-GFP vs. High-GFP, GFP-fed vs GFP+fed)

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Sparcl1 promotes nonalcoholic steatohepatitis progression through upregulation of CCL2

Project description:1. White adipose tissues (WAT) are capable of secreting not only fatty acids but also a class of secretory proteins that modulate the homeostasis of distant organs, including the liver. To identify potential WAT-enriched secretory factors involved in NASH progression, C57BL/6 male mice were fed with a normal chow diet or HFHC diet for two different periods: 12 weeks and 28 weeks. Then, we compared the expression profile of epididymal WAT (eWAT) from mouse models of NAFL and NASH above mentioned by RNA-Sequencing analysis. 2. To investigate the contribution of Sparcl1 in the pathogenesis of NASH, male C57BL/6J mice were fed a HFHC diet for 12 weeks, and then intraperitoneal injected with saline or recombinant Sparcl1 protein (0.2mg/kg) every other day for 3 weeks. To elucidate the molecular basis of Sparcl1-mediated NASH progression, we conducted RNA-Sequencing analysis for differentially expressed genes using the livers of chronic recombinant Sparcl1 protein or saline- treated mice.

2021-06-10 | GSE176681 | GEO

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