PXD027034

PXD027034 is an original dataset announced via ProteomeXchange.

Title	A jack of all trades and a master of some: remodeling of signaling pathways downstream of CFIm 3’ end processing factor
Description	The mammalian cleavage factor I (CFIm) has been implicated in alternative polyadenylation (APA) in a broad range of contexts, from cancers to learning deficits and parasite infections. To uncover the molecular pathways that translate CFIm expression levels into these observed phenotypes, we carried out a multi-omics analysis of cell lines in which the CFIm25 (NUDT21) or CFIm68 (CPSF6) subunits were either repressed by siRNA-mediated knockdown or over-expressed from stably integrated constructs. We established that more than 600 genes exhibit CFIm-dependent APA, and they cluster in distinct functional classes related to protein metabolism. The activity of the ERK pathway traces the CFIm concentration, and explains some of the metabolic and proliferation changes induced by CFIm perturbations. Transcripts of miRNA pathway proteins are prominent targets of CFIm-dependent APA. This leads to increased miRNA biogenesis and repressive activity at the same time as 3’ UTRs become shorter upon CFIm depletion. Our study provides a first systematic assessment of the signalling pathways downstream of CFIm to improve our understanding of CFIm-dependent phenotypes.
HostingRepository	PRIDE
AnnounceDate	2022-02-11
AnnouncementXML	Submission_2022-02-11_00:11:56.858.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD027034
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Alexander Schmidt
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-07-01 02:35:37	ID requested
⏵ 1	2022-02-11 00:11:57	announced

Dataset with its publication pending

submitter keyword: CFIm3, phosphorylation, TMT

Alexander Schmidt
contact affiliation	Biozentrum, University of Basel, Switzerland
contact email	alex.schmidt@unibas.ch
lab head
Alexander Schmidt
contact affiliation	Proteomics Core Facility
contact email	alex.schmidt@unibas.ch
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD027034
     1. Label: PRIDE project
     2. Name: A jack of all trades and a master of some: remodeling of signaling pathways downstream of CFIm 3’ end processing factor