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PXD003278

PXD003278 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleImpact of alternative splicing on the human proteome
DescriptionAlternative splicing is a critical determinant of genome complexity and by implication, is assumed to engender proteomic diversity. This notion has not been experimentally tested in a targeted, quantitative manner. Here, we have developed an integrative approach to ask whether dynamic perturbations in mRNA splicing patterns that follow depletion of the core spliceosome factor PRPF8 alter the composition of the proteome. We integrate RNA-sequencing (to comprehensively report intron retention, differential transcript usage and gene expression) with a newly developed data-independent acquisition (DIA) method, SWATH-MS (Sequential Window Acquisition of all THeoretical spectra – mass spectrometry), to capture an unbiased and quantitative snapshot of constitutive and alternative splicing events at the protein level. Whereas intron retention is accompanied by decreased protein abundance, dynamic alterations in differential transcript usage and gene expression alter protein abundance proportionally to transcript levels. Our findings exemplify how RNA splicing exerts a pervasive effect linking isoform expression in the human transcriptome with proteomic diversity, and provide a toolkit for studying its perturbation in human diseases.
HostingRepositoryPRIDE
AnnounceDate2017-08-02
AnnouncementXMLSubmission_2017-08-02_10:04:40.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterYansheng Liu
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListmonohydroxylated residue
InstrumentTripleTOF 5600
Dataset History
RevisionDatetimeStatusChangeLog Entry
02015-12-03 23:58:31ID requested
12017-08-02 10:04:40announced
Publication List
Dataset with its publication pending
Keyword List
curator keyword: Biological
submitter keyword: Alternative splicing, Proteome, PRPF8, SWATH
Contact List
Ruedi Aebersold
contact affiliationDepartment of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland
contact emailaebersold@imsb.biol.ethz.ch
lab head
Yansheng Liu
contact affiliationInstitute of Molecular Systems Biology, ETH Zurich
contact emailliu@imsb.biol.ethz.ch
dataset submitter
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