PXD006482

PXD006482 is an original dataset announced via ProteomeXchange.

Title	Identification of Missing Proteins in the Phosphoproteome of Kidney Cancer
Description	Finding missing proteins (MPs) has been one of the critical missions of Chromosome-Centric Human Proteome Project (C-HPP) since 2012, twenty-five research teams from seventeen countries have been trying to search adequate and accurate evidence for MPs through various biochemical strategies. In our previous study, we found that phosphoproteomics is one pleasant means to catch low-abundance and membrane proteins which are phosphorylated. Therefore, we speculate it may be an available approach for MPs detection. In this study, kidney cancer and adjacent tissues were used for phosphoproteomics research, we totally identified 8962 proteins including 6415 phosphoproteins, and 44728 phosphosites, of which 10266 were unreported previously. Interestingly, a total of 75 MPs were found, after rigorous screening and manual checking, 26 MPs were ranked as confident MPs by the verification with the synthesized peptides and a stringent manual check of their MS2 spectra, among which 14 MPs were phosphorylated. Functional analysis for 26 MPs revealed that 16 MPs were found to be membrane proteins, 7 MPs were testis-enriched and 1 MPs were kidney-specific. Therefore we concluded that phosphoproteomics is a promising approach in digging MPs for C-HPP studies.
HostingRepository	PRIDE
AnnounceDate	2017-09-01
AnnouncementXML	Submission_2017-09-01_06:38:56.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD006482
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Feng Xu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue; monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2017-05-10 00:44:58	ID requested
⏵ 1	2017-09-01 06:38:57	announced

Peng X, Xu F, Liu S, Li S, Huang Q, Chang L, Wang L, Ma X, He F, Xu P, Identification of Missing Proteins in the Phosphoproteome of Kidney Cancer. J Proteome Res, 16(12):4364-4373(2017) [pubmed]

ProteomeXchange project tag: Chromosome-centric Human Proteome Project (C-HPP), Kidney Urine (B/D-HPP), Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project

curator keyword: Biomedical

submitter keyword: Chromosome-Centric Human Proteome Project, Missing proteins, phosphoproteomics, kidney cancer, LTQ Orbitrap Velos

Ping Xu
contact affiliation	National Center For Protein Sciences · Beijing
contact email	xuping@mail.ncpsb.org
lab head
Feng Xu
contact affiliation	NCPSB
contact email	xf_future_2005@163.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD006482
     1. Label: PRIDE project
     2. Name: Identification of Missing Proteins in the Phosphoproteome of Kidney Cancer