Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Identification of BNC2 interactors in human LX2 cells using RIME

ABSTRACT: The goal of this study was to use Rapid Immunoprecipitation Mass spectrometry of Endogenous protein (RIME) assays (Mohammed et al., 2016) to identify transcriptional regulatory partners of the transcription factor BNC2 in LX2 cells. Protein complexes were immune-precipitated with an anti-BNC2 antibody (55220-1-AP, Proteintech) or control non-immune IgG (normal rabbit IgG #2729, Cell Signaling) before being subjected to MS.

INSTRUMENT(S): timsTOF Pro

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Hepatic Stellate Cell, Liver

SUBMITTER: Jean-Marc STRUB

LAB HEAD: Strub Jean-Marc

PROVIDER: PXD003624 | Pride | 2022-08-05

REPOSITORIES: pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	RIME_1.7z	Other
	RIME_1.dat	Other
	RIME_3.7z	Other
	RIME_3.dat	Other
	RIME_3.mzid.gz	Mzid

Items per page:

1 - 5 of 45

Similar Datasets

Selective Translation of Maternal mRNA by eIF4E1B Controls Oocyte to Embryo Transition

Project description:To identify mRNAs loaded onto eIF4E1B and eIF4E, LACE-seq was performed using eIF4E1B and eIF4E immunoprecipitated mRNAs from mouse fully grown oocytes RNA co-precipitated with eIF4E1B and eIF4E differed from the control RNA enriched by the control IgG rabbit serum antibody.

2023-02-21 | GSE213866 | GEO

ChIP-seq data of Jun target genes and the control in zebrafish embryos

Project description:The ChIP assay was carried out within the tgf- mutant and sibling embryos at 32 hpf in zebrafish. The sonicated DNA was precipitated by Jun or Normal Rabbit IgG antibodies.

2017-06-08 | E-MTAB-5699 | biostudies-arrayexpress

Translational specialization in pluripotency by RBPMS poises future lineage-decisions

Project description:Immunoprecipitation for RBPMS in human embryonic stem cells. Triplicates of sheep anti-rabbit beads coupled with rabbit anti-RBPMS antibody were compared with and triplicates sheep anti-rabbit beads, which served as IgG control. Bands above heavy IgG, between heavy IgG and light IgG, below IgG and both IgG bands combined were excised from a gel and labeled via dimethyl labeling, before LC-MS run to increase detection resolution.

2023-10-26 | PXD032040 | Pride

RIME of EVI-1 in HNT34 and UCSD/AML1 cell lines and one primary sample to identify interactors

Project description:Rapid Immunoprecipitation Mass spectrometry of Endogenous proteins (RIME) of two AML cell lines HNT34 and UCSD/AML1 and one primary sample. EVI-1 is immunoprecipitated and the nearby chromatin-bound proteins are identified.

2023-05-23 | PXD042440 | Pride

RIME of EVI-1 in HNT34 and UCSD/AML1 cell lines and one primary sample to identify interactors

2023-03-23 | PXD038686 | Pride

Identification of ChIP-seq and RIME grade antibodies for estrogen receptor alpha

Project description:Identification of ChIP-seq and RIME grade antibodies for estrogen receptor alpha

| PRJNA526770 | ENA

Identification of ChIP-seq and RIME grade antibodies for Estrogen Receptor alpha

Project description:Estrogen Receptor alpha (ERα) is a key driver of most breast cancers, and it is the target of endocrine therapies used in the clinic to treat women with ERα positive (ER+) breast cancer. The two methods ChIP-seq (chromatin immunoprecipitation coupled with deep sequencing) and RIME (Rapid Immunoprecipitation of Endogenous Proteins) have greatly improved our understanding of ERα function during breast cancer progression and in response to anti-estrogens. A critical component of both ChIP-seq and RIME protocols is the antibody that is used to pull down the bait protein. To date, most of the ChIP-seq and RIME experiments for the study of ERα have been performed using the sc-543 antibody from Santa Cruz Biotechnology. However, this antibody has been discontinued, thereby severely impacting the study of ERα in normal physiology as well as diseases such as breast cancer and ovarian cancer. Here, we compare the sc-543 antibody with other commercially available antibodies, and we show that 06-935 (EMD Millipore) and ab3575 (Abcam) antibodies can successfully replace the sc-543 antibody for ChIP-seq and RIME experiments.

2019-03-21 | PXD012930 | Pride

CUT&Tag analysis uncovered Pou4f1-bound DNA elements in E16.5 retinas

Project description:To understand how Pou4f1 functions in RGC lineage specification and subtype formation, we performed “Cleavage Under Targets & Tagmentation” (CUT&Tag) analysis using a rabbit anti-Pou4f1 antibody and embryonic 16.5 (E16.5) retinal cells to generate barcoded PCR libraries that are enriched for Pou4f1-mediated binding. In parallel, rabbit IgG was used as a negative control for peak calling analysis, and rabbit anti-H3K9ac antibody was used to mark active enhancers and promoters.

2023-04-30 | GSE221209 | GEO

ARID1A RIME in human cell lines and tissue xenografts.

Project description:Examination of chromatin-bound proteins associated with ARID1A, BRG1 and ERa in MCF7 cells and ERa in ER+ patient-derived xenografts using RIME protocol and mass spectrometry.

2019-10-31 | PXD011810 | Pride

p53 ChIP-seq of primary astrocytes in vitro

Project description:To investigate the transcriptional regulation by p53 in astrocytes, we performed ChIP-sequencing using p53 antibody (Leica CM-5) or rabbit IgG control in wildtype primary mouse cortical astrocytes.

2023-02-23 | GSE196863 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data