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PXD024364 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleDeep Human Proteome Sequencing Enables Global Detection of Mutations and Alternative Splicing
DescriptionMass spectrometry-based proteomics now routinely enables identification of over 10,000 human proteins from a single sample. However, proteins are typically identified by peptide sequences representing about 20% of all proteinogenic amino acids encoded in the transcriptome. Deeper protein sequencing - detection of all amino acids - is imperative for proteoform discovery and quantitative comparison. Here, we utilized six ENCODE cell lines, six proteases, and three tandem mass spectrometry (MS/MS) fragmentation methods to collect 2,491 raw MS data files. From these data we identified 17,717 protein groups with a median sequence coverage of 79.2%, confirming over eight million unique human amino acid residues. We compare our proteomics data with transcriptomics data and demonstrate how such deep proteome coverage can enable detection of over 7,000 proteoforms including 70.9 to 90.6% of all non-synonymous mutations and over 5,000 alternative splicing event junctions. Our dataset represents a valuable resource as the largest human proteome with the highest sequence coverage ever reported.
ReviewLevelNon peer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterDain Brademan
SpeciesList scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationListS-carboxamidomethyl-L-cysteine; Oxidation
InstrumentOrbitrap Fusion; Orbitrap Fusion Lumos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02021-02-24 09:31:53ID requested
12023-02-03 09:54:02announced
Publication List
no publication
Keyword List
submitter keyword: single amino acid polymorphism, splice variant, deep sequencing, transcriptomics, proteomics, fractionation
Contact List
Juergen Cox
contact affiliationMax Planck Institute of Biochemistry
contact emailcox@biochem.mpg.de
lab head
Joshua Coon
contact affiliationUniversity of Wisconsin - Madison
contact emailjcoon@chem.wisc.edu
lab head
Dain Brademan
contact affiliationCoon Laboratory
contact emailbrademan@wisc.edu
dataset submitter
Full Dataset Link List
MassIVE dataset URI
Dataset FTP location
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