PXD009995

PXD009995 is an original dataset announced via ProteomeXchange.

Title	INKA, an integrative analysis pipeline for inference of hyperactive phosphokinases in mass spectrometry-based phosphoproteomics data
Description	this data upload is part of PXD006616. The new data is acquired from human-in-mouse PDX tumor tissue. The data uploaded as PXD006616 was cell line data. The two data sets can be merged into a single PXD accession. The Sample processing and Data processing sections are updated and the corresponding sections in PXD006616 can be replaced by the new sections.
HostingRepository	PRIDE
AnnounceDate	2019-04-18
AnnouncementXML	Submission_2019-04-18_03:30:53.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sander Piersma
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue; monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-06-01 01:52:31	ID requested
⏵ 1	2019-04-18 03:35:42	announced

Beekhof R, van Alphen C, Henneman AA, Knol JC, Pham TV, Rolfs F, Labots M, Henneberry E, Le Large TY, de Haas RR, Piersma SR, Vurchio V, Bertotti A, Trusolino L, Verheul HM, Jimenez CR, INKA, an integrative data analysis pipeline for phosphoproteomic inference of active kinases. Mol Syst Biol, 15(4):e8250(2019) [pubmed]

curator keyword: Biological

submitter keyword: Human, Tyrosine kinase, phosphokinase ranking, label-free, single-shot, phosphoproteomics, PDX, clinical

Connie Ramona Jimenez
contact affiliation	OncoProteomics Laboratory, Dept of Medical Oncology, VU University Medical Center, Amsterdam, The Netherlands
contact email	c.jimenez@vumc.nl
lab head
Sander Piersma
contact affiliation	OncoProteomics Laboratory, dept of Medical Oncology, VUmc Medical Center, Amsterdam, The Netherlands
contact email	s.piersma@vumc.nl
dataset submitter

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://ftp.pride.ebi.ac.uk/pride/data/archive/2019/04/PXD009995

PRIDE project URI

• PRIDE
  1. PXD009995
     1. Label: PRIDE project
     2. Name: INKA, an integrative analysis pipeline for inference of hyperactive phosphokinases in mass spectrometry-based phosphoproteomics data