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PXD000287

PXD000287 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleComparative analysis of chicken seminal plasma
DescriptionSemen from 11 chickens was collected, supplemented with anti-proteases and centrifuged to separate sperm cells and fluids. 25µg of proteins for each chicken were included in-gel without fractionnation (1 band) followed by Coomassie Blue staining. After reduction and alkylation, proteins were in-gel digested with trypsin and peptide mixtures were analyzed by nanoLC-MS/MS using LTQ velos Orbitrap mass spectrometer. Raw data files were converted to MGF with Proteome Discoverer software (version 1.2; Thermo Fischer Scientific, San Jose, USA). Precursor mass range of 350-5000 Da and signal to noise ratio of 1.5 were the criteria used for generation of peak lists. In order to identify the proteins, the peptide and fragment masses obtained were matched automatically against the chordata section of a locally maintained copy of nr NCBI (19922528 sequences, download 08/21/2012). MS/MS ion searches were performed using MASCOT Daemon and search engine (version 2.3; Matrix Science, London, UK). The parameters used for database searches include trypsin as a protease with allowed two missed cleavage, carbamidomethylcysteine (+57 Da), oxidation of methionine (+16) and N-terminal protein acetylation (+42) as variable modifications. The tolerance of the ions was set to 5 ppm for parent and 0.8 Da for fragment ion matches
HostingRepositoryPRIDE
AnnounceDate2014-10-23
AnnouncementXMLSubmission_2014-10-23_03:00:03.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterLabas Valerie
SpeciesList scientific name: Gallus gallus (Chicken); NCBI TaxID: 9031;
ModificationListmonohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
InstrumentLTQ Orbitrap Velos
Dataset History
RevisionDatetimeStatusChangeLog Entry
02013-06-13 02:50:14ID requested
12014-08-06 02:33:51announced
22014-10-22 09:26:42announcedUpdated project metadata.
32014-10-23 03:00:04announcedUpdated project metadata.
Publication List
Labas V, Grasseau I, Cahier K, Gargaros A, Harichaux G, Teixeira-Gomes AP, Alves S, Bourin M, G, é, rard N, Blesbois E, Qualitative and quantitative peptidomic and proteomic approaches to phenotyping chicken semen. J Proteomics, 112():313-35(2015) [pubmed]
Keyword List
curator keyword: Biological
submitter keyword: Seminal plasma, chicken, LC-MSMS
Contact List
Labas Valerie
contact affiliationINRA-Nouzilly-PRC
contact emailvalerie.labas@tours.inra.fr
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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