PXD029773
PXD029773 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Proteomic datasets of HeLa and SiHa cell lines acquired by DDA-PASEF and diaPASEF |
| Description | We present four datasets on proteomics profiling of HeLa and SiHa cell lines associated with the research described in the paper “PROTREC: A probability-based approach for recovering missing proteins based on biological networks”. Proteins in each cell line were acquired by two different data acquisition methods. The first was Data Dependent Acquisition-Parallel Accumulation Serial Fragmentation (DDA-PASEF) and the second was Parallel Accumulation-Serial Fragmentation combined with data-independent acquisition (diaPASEF) . Protein assembly was performed following search against the Swiss-Prot Human database using Peaks Studio for DDA datasets and Spectronaut for DIA datasets . The assembled result contains identified PSMs, peptides and proteins that are above threshold for each HeLa and SiHa sample. Coverage-wise, for DDA-PASEF, approximately 6,090 and 7,298 proteins proteins were quantified for HeLa and SiHA sample, while13,339 and and 8,773 proteins were quantified by diaPASEF for HeLa for SiHa sample respectively. |
| HostingRepository | iProX |
| AnnounceDate | 2021-11-17 |
| AnnouncementXML | Submission_2021-11-16_23:44:04.375.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Weijia Kong |
| SpeciesList | scientific name: Homo sapiens; NCBI TaxID: 9606; |
| ModificationList | No PTMs are included in the dataset |
| Instrument | timsTOF Pro |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2021-11-16 23:43:40 | ID requested | |
| ⏵ 1 | 2021-11-16 23:44:05 | announced |
Publication List
| Kong W, Wong BJH, Gao H, Guo T, Liu X, Du X, Wong L, Goh WWB, PROTREC: A probability-based approach for recovering missing proteins based on biological networks. J Proteomics, 250():104392(2022) [pubmed] |
Keyword List
| submitter keyword: Proteomics, DDA-PASEF, diaPASEF |
Contact List
| Wilson Wen Bin Goh | |
|---|---|
| contact affiliation | Nanyang Technological University |
| contact email | wilsongoh@ntu.edu.sg |
| lab head | |
| Weijia Kong | |
| contact affiliation | Nanyang Technological University |
| contact email | weijia002@e.ntu.edu.sg |
| dataset submitter | |
Full Dataset Link List
| iProX dataset URI |
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