PXD003773

PXD003773 is an original dataset announced via ProteomeXchange.

Title	Integrative genome annotation of Malassezia sympodialis
Description	The skin commensal yeast Malassezia is associated with several skin disorders. To establish a reference resource, we sought to determine the complete genome sequence of Malassezia sympodialis and identify its protein-coding genes. A novel genome annotation workflow combining RNA sequencing, proteomics, and manual curation was developed to determine gene structures with high accuracy.
HostingRepository	PRIDE
AnnounceDate	2016-12-20
AnnouncementXML	Submission_2017-02-15_10:42:32.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yafeng Zhu
SpeciesList	scientific name: Malassezia sympodialis (strain ATCC 42132) (Atopic eczema-associated yeast); NCBI TaxID: 1230383;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2016-03-11 06:08:22	ID requested
1	2016-12-20 05:18:14	announced
⏵ 2	2017-02-15 10:42:34	announced	Updated publication reference for PubMed record(s): 28100699.

Zhu Y, Engstr, ö, m PG, Tellgren-Roth C, Baudo CD, Kennell JC, Sun S, Billmyre RB, Schr, ö, der MS, Andersson A, Holm T, Sigurgeirsson B, Wu G, Sankaranarayanan SR, Siddharthan R, Sanyal K, Lundeberg J, Nystedt B, Boekhout T, Dawson TL, Heitman J, Scheynius A, Lehti, ö J, Proteogenomics produces comprehensive and highly accurate protein-coding gene annotation in a complete genome assembly of Malassezia sympodialis. Nucleic Acids Res, 45(5):2629-2643(2017) [pubmed]

curator keyword: Biological, Biomedical

submitter keyword: Malassezia sympodialis, clinical isolates, LC-MS/MS

Janne Lehtiö
contact affiliation	Cancer proteomics, Oncology-Pathology department, Karolinska Institutet
contact email	janne.lehtio@ki.se
lab head
Yafeng Zhu
contact affiliation	Karolinska Institutet
contact email	yafeng.zhu@scilifelab.se
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/2016/12/PXD003773

PRIDE project URI

• PRIDE
  1. PXD003773
     1. Label: PRIDE project
     2. Name: Integrative genome annotation of Malassezia sympodialis