PXD024906

PXD024906 is an original dataset announced via ProteomeXchange.

Title	Spatial discordances between mRNAs and proteins in the intestinal epithelium
Description	We obtained a spatial measurement of RNA and Proteins in the small intestinal epithelium along the crypt-villus axis. We found that both were spatially heterogeneous, yet often spatially anti-correlated. We developed a Bayesian approach to infer protein translation and degradation rates from the combined spatial profiles, and demonstrate that space-independent protein-synthesis delays can explain the mRNA-protein discordances. Our work provides a proteomic spatial blueprint of the Intestinal epithelium and highlights the importance of protein measurements for inferring states of tissue cells that operate outside of steady state
HostingRepository	PRIDE
AnnounceDate	2021-11-02
AnnouncementXML	Submission_2021-11-02_04:34:56.292.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Alon Savidor
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	iodoacetamide derivatized residue; deamidated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-03-22 04:36:14	ID requested
⏵ 1	2021-11-02 04:34:56	announced

Dataset with its publication pending

submitter keyword: small intestine

epithelium

crypt-villus axis

spatial heterogeneity

RNA-protein dynamics

Bayesian modeling, proteomics

Prof. Shalev Itzkovitz
contact affiliation	Department of Molecular Cell Biology Faculty of Biology Weizmann Institute of Science Rehovot, Israel
contact email	shalev.itzkovitz@weizmann.ac.il
lab head
Alon Savidor
contact affiliation	The Weizmann Institute of Science
contact email	alon.savidor@weizmann.ac.il
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2021/11/PXD024906

PRIDE project URI

• PRIDE
  1. PXD024906
     1. Label: PRIDE project
     2. Name: Spatial discordances between mRNAs and proteins in the intestinal epithelium