⮝ Full datasets listing
PXD036143
PXD036143 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Comprehensive discovery of the accessible primary amino group containing segments from cell surface proteins by fine-tuning high-throughput biotinylation method |
| Description | Cell surface proteins, including transmembrane and other surface-anchored proteins, play a key role in several critical cellular processes and have a strong diagnostic potential. The development of quick and robust experimental methods remains vital for the accurate and comprehensive characterization of the cell surface subproteome of individual cells. Here we present a high-throughput technique, which relies on the biotinylation of the accessible primary amino groups in the extracellular segments of the proteins, using HL60 as a model cell line. Several steps of the method have been thoroughly optimized to capture labelled extracellular peptides selectively and in larger quantities. These include the following: efficiency of the cell surface labelling, reducing the endogen protease activity by a well-controlled membrane preparation process, applying an optimal amount of affinity column for labelled peptide enrichment including adjustment of the elution steps, examining the effect of various solid phase extraction methods, different HPLC gradients and various tandem mass spectrometry settings. Using the optimized workflow, we identified at least 2000 surface-associated individual labelled peptides (~6-7000 redundant peptides) from the model cell surface in a single nanoHPLC-MS/MS run. The presented method can provide a comprehensive and specific list of the cell surface available peptide segments that could be potential targets in various bioinformatics and molecular biology research. |
| HostingRepository | MassIVE |
| AnnounceDate | 2026-03-05 |
| AnnouncementXML | Submission_2026-03-13_11:40:03.283.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Gabor Toth |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | Carbamidomethyl; Dicarbamidomethyl; BEMAD_C; Deamidated; Gln->pyro-Glu; Glu->pyro-Glu; Ammonia-loss; Carbamyl; Acetyl; CAMthiopropanoyl; Xlink:DTSSP[88] |
| Instrument | maXis II |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2022-08-18 03:13:23 | ID requested | |
| ⏵ 1 | 2026-03-13 11:40:03 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: biotinylated peptides, cell surface proteins, affinity enrichment, solid phase extraction, HPLC, mass spectrometry, surfaceome |
Contact List
| Tamas Lango | |
|---|---|
| contact affiliation | Protein Bioinformatics Research Group, Institute of Enzymology, Research Centre for Natural Sciences |
| contact email | lango.tamas@ttk.hu |
| lab head | |
| Lilla Turiak | |
| contact affiliation | MS Proteomics Research Group, Research Centre for Natural Sciences, Eotvos Lorand Research Network |
| contact email | turiak.lilla@ttk.hu |
| lab head | |
| Gabor Toth | |
| contact affiliation | Research Centre for Natural Sciences |
| contact email | toth.gabor@ttk.hu |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| 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://massive-ftp.ucsd.edu/v04/MSV000090149/ |
