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PXD022533 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleSubCellBarCode: Integrated workflow for robust classification and visualization of spatial proteome
DescriptionWe have developed a mass spectrometry (MS) and bioinformatics-based pipeline to generate a proteome-wide resource of protein subcellular localization across multiple human cancer cell lines (www.subcellbarcode.org). Here, we present a detailed wet-lab protocol spanning from subcellular fractionation to MS-sample prep, as well as a dry-lab protocol covering quantitative MS-data analysis, machine-learning-based classification, differential localization analysis and visualization of the output. For broad applicability, we evaluated the pipeline using MS-data generated by three different peptide prefractionation approaches, HiRIEF-LC-MS, High-pH reverse phase fractionation and direct analysis without pre-fractionation using long gradient LC-MS.
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterYanbo Pan
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListS-carboxamidomethyl-L-cysteine; L-methionine sulfoxide; TMT6plex reporter+balance reagent N-acylated residue; TMT6plex reporter+balance reagent acylated N-terminal
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02020-11-15 12:49:37ID requested
12022-09-26 01:48:45announced
Publication List
Arslan T, Pan Y, Mermelekas G, Vesterlund M, Orre LM, Lehti, ö J, SubCellBarCode: integrated workflow for robust spatial proteomics by mass spectrometry. Nat Protoc, 17(8):1832-1867(2022) [pubmed]
Keyword List
submitter keyword: Subcellular fractionation, Protein localization, Proteomics, Mass spectrometry, Classification, Visualization
Contact List
Janne Lehtiö
lab head
Yanbo Pan
contact affiliationKarolinska Institutet
dataset submitter
Full Dataset Link List
jPOST dataset URI
Dataset FTP location
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