PXD029773-1

PXD029773 is an original dataset announced via ProteomeXchange.

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

Revision	Datetime	Status	ChangeLog Entry
0	2021-11-16 23:43:40	ID requested
⏵ 1	2021-11-16 23:44:05	announced

submitter keyword: Proteomics, DDA-PASEF, diaPASEF

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

iProX dataset URI