Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

X-link of KIF3A/KIF3B/KAP3 complex with DSSO

ABSTRACT: X-link sites of KIF3A/KIF3B/KAP3 complex with DSSO

ORGANISM(S): Mus Musculus (mouse)

SUBMITTER: Tadayuki Ogawa

PROVIDER: PXD027943 | JPOST Repository | Tue Aug 16 00:00:00 BST 2022

REPOSITORIES: jPOST

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	20201029_2ndQE_ogawa_3_ABK.raw	Raw
	20201129_KIF3AKIF3BKAP3.xlsx	Xlsx

Items per page:

1 - 2 of 2

Similar Datasets

X-link of KIF3A/KIF3B/KAP3/APC complex with DSSO

Project description:X-link sites of KIF3A/KIF3B/KAP3/APC complex with DSSO

2022-08-16 | PXD027942 | JPOST Repository

X-link of KIF2C-tubulin complex with DSSO

Project description:KIF2-tubulin complex was crosslinked with DSSO, trypsinized, and analyzed by LC-MS.

2017-09-13 | PXD007142 | JPOST Repository

Expanding the depth and sensitivity of cross-link identification by differential ion mobility using FAIMS

Project description:In cross-linking mass spectrometry (XL-MS), the depth and sensitivity of cross-link detection is often limited by the low abundance of cross-links compared to non-cross-linked peptides in the digestion mixture. To improve the identification efficiency of cross-links, here we present a gas-phase separation strategy using high field asymmetric waveform ion mobility spectrometry (FAIMS) coupled to the Orbitrap Tribrid mass spectrometers. By enabling an additional peptide separation step in gas phase using the FAIMS device, we increase the number of cross-link identification by 22% for a medium complex sample and 59% for strong cation exchange-fractionated HEK293T cell lysate in XL-MS experiments using disuccinimidyl sulfoxide (DSSO) cross-linker. When disuccinimidyl suberate (DSS) cross-linker is in use, we are able to boost cross-link identification by 89% for the medium and 100% for the highly complex sample comparing to the analyses without FAIMS . Furthermore, we show that for medium complex samples, FAIMS enables the collection of single-shot XL-MS data with comparable depth to the corresponding sample fractionated by chromatography-based approaches. Altogether, we demonstrate FAIMS is highly beneficial for XL-MS studies by expanding the proteome coverage of cross-links while improving the efficiency and confidence of cross-link identification.

2020-07-22 | PXD019926 | Pride

Stipa gigantea Link.

Project description:Stipa gigantea Link. Raw sequence reads

| PRJNA783886 | ENA

E2f6 and Mga transcription factors link polycomb repressive complex PRC1.6 to methylation of CpG islands

Project description:E2f6 and Mga transcription factors link polycomb repressive complex PRC1.6 to methylation of CpG islands

| PRJNA322164 | ENA

Clostridium sp. link-BC1

Project description:Clostridium sp. link-BC1 Genome sequencing and assembly

| PRJNA311502 | ENA

A functional link between nuclear RNA decay and transcritional control mediated by the Polycomb Repressive Complex 2

Project description:Pluripotent embryonic stem (ES) cells constitute an essential cellular niche in animal development. It is well documented that ES cells are sustained by epigenetic and transcriptional regulation, but the role of post-transcriptional processes remains less explored. Here, we identify a link between nuclear RNA levels, regulated by the ‘polyA RNA exosome targeting’ (PAXT) connection, and transcriptional control, regulated by the Polycomb Repressive Complex 2 (PRC2). Knockout of the PAXT component ZFC3H1 in mouse ES cells impairs their differentiation. In addition to the upregulation of bona fide PAXT substrates, Zfc3h1-/- cells abnormally express developmental genes usually subjected to PRC2-mediated repression. Such de-repression is paralleled by decreased PRC2 binding to chromatin at target genes, and low PRC2-directed H3K27 methylation. PRC2 complex stability is compromised in Zfc3h1-/- cells with elevated levels of unspecific RNA bound to PRC2 components. We propose that excess RNA hampers PRC2 function through its sequestration from DNA and complex destabilisation. Our results highlight the importance of balancing nuclear RNA levels and demonstrate the capacity of bulk RNA to regulate chromatin-associated proteins.

2019-11-12 | GSE137491 | GEO

A functional link between nuclear RNA decay and transcritional control mediated by the Polycomb Repressive Complex 2

Project description:A functional link between nuclear RNA decay and transcritional control mediated by the Polycomb Repressive Complex 2

| PRJNA565723 | ENA

Functional link between Rad2 and Mediator

Project description:Functional link between Rad2 and Mediator

| PRJEB1723 | ENA

Functional link between TFIIB and Mediator

Project description:Functional link between TFIIB and Mediator

| PRJEB13355 | ENA