Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Identification of TRIM10-binding proteins in HUDEP-2 cells under erythroid differentiation

ABSTRACT: To identify the potential TRIM10 binding proteins, we performed co-immunoprecipitation assay with anti-TRIM10 antibody in HUDEP-2 cells cultured on indicated differentiation day.

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Boyoun Park

PROVIDER: PXD057420 | JPOST Repository | Mon Oct 27 00:00:00 GMT 2025

REPOSITORIES: jPOST

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	D0_D8_D12_Mass_data_Rep1_Raw.zip	Other
	D0_D8_D12_Mass_data_Rep1_Results.xlsx	Xlsx
	D0_D8_D12_Mass_data_Rep2_Raw.zip	Other
	D0_D8_D12_Mass_data_Rep2_Results.xlsx	Xlsx

Items per page:

1 - 4 of 4

Publications

Stage-specific TRIM10 expression regulates erythroid maturation.

Kim Heesoo H Shin Wonji W Lee Dongeun D Jeon Byunghoon B Kim Yongbo Y Shin Donghyuk D Jeong Hyobin H Hong Jun Young JY Lee Sungwook S Park Boyoun B

EMBO reports 20251030 23

Mammalian erythroid cells undergo extensive organelle and protein remodeling during erythropoiesis. The transcriptome and proteome of ubiquitin E3 ligases change dynamically during erythroid differentiation, yet mechanisms beyond E3 activity remain unclear. Here, we identify that tripartite motif-containing protein 10α (TRIM10α), an erythroid- and stage-specific E3 ligase, as crucial for stepwise erythroid maturation. TRIM10α self-association to localize on erythroblast surfaces, binding extrace ...[more]

PMID: 41168352

Similar Datasets

PSME3 Regulates Migration and Differentiation of Myoblasts

Project description:This is the first of 2 proteomics experiments in the same project (see https://www.biorxiv.org/content/10.1101/2025.01.08.632048v1.full). This one is a co-Immunoprecipitation experiment aimed at determining the interaction partners of proteasome regulator PSME3. PSME3 was captured from C2C12 cell lysates using a PSME3-targeting antibody or an IgG control at several timepoints of serum starvation-induced differentiation (Cycling, Day 0, and Day 1). The immunoprecipitate was analyzed by mass spectrometry.

2025-06-17 | PXD063339 | Pride

Identification of Nucleolin-binding proteins in RAW 264.7 macrophages under LPS stimulation

Project description:To identify the potential Nucleolin binding proteins, we performed co-immunoprecipitation assay in 12 h LPS-stimulated RAW 264.7 macrophages.

2023-01-04 | PXD030716 | JPOST Repository

RNA binding of DDX20 in the testis of postnatal 7-day-old C57BL/6 mice.

Project description:RNA immunoprecipitation assay followed by Next-Generation Sequencing (RIPseq) to identify RNAs bound by DDX20 in testis of postnatal 7-day-old C57BL/6 mice.

2023-10-01 | GSE217687 | GEO

Proteomic characterization of human neural stem cells during in vitro differentiation

Project description:One of the promising approaches to slow down or treat neurodegenerative diseases or spinal cord injuries represent cell therapies. The grafted cells could either integrate into the damaged tissue to replace dead or damaged cells or by secretion of different factors modulate inflammatory reaction, reduce tissue damage and support neuronal survival. However, due to the heterogeneity of in vitro cultured cells, comprehensive characterization of such cells is absolutely crucial to prevent safety risks. Here, we performed SWATH-MS analysis to characterize changes in proteome of human neural stem cells (NSCs) during their differentiation either spontaneously by withdrawal of EGF and FGF2 in cell culture media or by trophic support of BDNF/GDNF growth factors. We quantified about 2800 proteins over the 28 days of differentiation and showed that changes in cellular proteomes are caused mostly by differentiation time course, rather than type of differentiation itself and that the major changes in protein expression occurred between day 0 and day 7 of both differentiations.

2021-01-07 | PXD021860 | panorama

Bcl6 binding sites in in vitro cortical progenitors [ChIP-Seq]

Project description:Chromatin immunoprecipitation following Bcl6 induction (24h doxycycline) in mouse ES-cell-derived cortical progenitors (differentiation day 12).

2019-06-20 | GSE132964 | GEO

ATAC-seq of OT-I cells co-cultured with vehicle or TAMos under OVA257-264 stimulation

Project description:To characterize the regulation of tumor-associated monocytes (TAMos) on the epigenetic map of T cells, we conducted the assay for transposase-accessible chromatin with high-throughput sequencing (ATAC-seq) of OT-I cells co-cultured with vehicle or TAMos derived from the spleens of LLC tumor-bearing mice in response to OVA257-264 peptides.

2026-02-07 | GSE224872 | GEO

Key regulatory roles of PRDM1 in human NK-cell differentiation and activation

Project description:PRDM1, encoding a transcription factor (TF), regulates plasma cell and CD8+ T-cell terminal differentiation and Th2 lineage specification, while its role in human NK-cell differentiation and homeostasis is largely unknown. Here, we employed a multi-omics approach to dissect the transcriptional control of PRDM1 on human NK-cells. We also employed the APEX2 proximity-based biotinylation method, which enables efficient biotin-labeling of proteins within ~20 nm radius. NK-cells expressing APEX2-tagged PRDM1 were cultured with feeders for 7 or 28 days for the analysis of proximity-labeled proteins. Of the 30 PRDM1-associated cofactors identified by RIME, 12 (40%) were also detected in the APEX2 assay. Consistent with the RIME assay, RUNX3, RUNX1, and CBF-β were also biotinylated by PRDM1- APEX2. A lot more cofactors were identified in the APEX2 experiment, including HDAC1/2, histone deacetylases present in multiple corepressor complexes, similar to a previous study in mouse plasmablasts.

2026-01-19 | PXD069044 | Pride

Regulation of bovine Th2 differentiation in Vitro

Project description:Naive CD4+ T cells, sorted from PBMCs of grass-fed beef cattle, were stimulated with anti-bovine CD3 under Th2 differentiation conditions with or without Ostertagia ostertagi (OO) protein extract. Th1 differentiation conditions were included for comparison. The effect of recombinant bovine IL-4 (rbIL-4) and weakening TCR signal strength on Th2 differentiation were also tested. Flow cytometry, qPCR and proteomic assay were performed to analyze the differentiated cells. The majority of differentiated cells expressed IFNgamma (a hallmark cytokine for Th1) and a small percentage of cells expressed both IFNgamma and IL-4 (a hallmark cytokine for Th2), indicating the presence of Th0 cells, as previously reported in cattle. While weakening TCR signal strength reduced Th2 cell expansion, adding rbIL-4 or OO protein extract enhanced Th2 cell expansion but without significant changes in IFNgamma and IL-4 expression. Proteomic data predicted that, as in mice and humans, bovine Th2 differentiation results from three upstream stimulation with CD3, CD28, and IL-4, which were inhibited when OO protein extract was added into the Th2 differentiation media. Importantly, protein profiling indicated that the addition of rbIL-4 enhanced IL-4 signaling but inhibited IL-12 signaling. Soon, we are planning to explore if other cytokines like IL-10 can be applied to optimize this Th2 differentiation in vitro. Naive bovine CD4+ T cells differentiate into a mixed population containing a high percentage of IFNgamma producing cells and a small percentage of Th0 cells. Furthermore, bovine Th2 differentiation is sensitive to regulation such as by OO or rbIL-4.

2023-03-22 | MSV000091527 | MassIVE

The combination of valproic acid and lithium prevents hematopoietic stem/progenitor cell differentiation.

Project description:Expression profiles of 7-day cultured HSPCs in the presence or absence of valproic acid and/or lithium. Two small molecules, valproic acid (VPA) and lithium (Li), were tested to inhibit differentiation of hematopoietic stem/progenitor (HSPC) cells in culture. HSPCs exposed to VPA and Li during differentiation-inducing culture preserved an immature cell phenotype, provided radioprotection to lethally irradiated recipients and enhanced in vivo repopulating potential. Furthermore, VPA and Li synergistically preserved expression of stem cell-related genes and repressed genes involved in differentiation. Target genes were collectively co-regulated during normal hematopoietic differentiation. Additionally, transcription factor networks were identified as possible primary regulators. Our results demonstrate that the combination of VPA and Li potently prevents differentiation at the biological and the molecular level, and provide evidence to suggest that combinatorial screening of chemical compounds may uncover possible additive/synergistic effects to modulate stem cell fate decisions. These data consist of total mRNA obtained from hematopoietic cells cultured for 7 days in the presence or absence of valproic acid and/or lithium. All samples were analyzed in independent biological triplicates.

2011-12-15 | E-GEOD-34088 | biostudies-arrayexpress

Global analysis of NFATc1 binding and histone marks in VEGF-activated endothelial cells

Project description:We performed the newly mapping of genome-wide NFATc1 binding events in VEGF-stimulated primary cultured endothelial cells, by chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq). Combined NFATc1 ChIP-seq profile and the epigenetic histone marks revealed that predominant NFATc1-occupied peaks were overlapped with promoter marking but not silencer marking. DNA microarrays with NFATc1 expression or knockdown indicated the predominant NFATc1 binding targets were correlated with induced patterns.

2013-09-01 | GSE49428 | GEO