<?xml version="1.0" encoding="UTF-8" standalone="yes"?> <ProteomeXchangeDataset formatVersion="1.0.0" id="PXD000001" xsi:noNamespaceSchemaLocation="proteomeXchange-draft-07.xsd" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"> <ChangeLog> <ChangeLogEntry date="2013-06-04">Add reference</ChangeLogEntry> </ChangeLog> <DatasetSummary title="TMT spikes" hostingRepository="PRIDE" announceDate="2013-06-04"> <Description>Expected reporter ion ratios: Erwinia peptides: 1:1:1:1:1:1 Enolase spike (sp|P00924|ENO1_YEAST): 10:5:2.5:1:2.5:10 BSA spike (sp|P02769|ALBU_BOVIN): 1:2.5:5:10:5:1 PhosB spike (sp|P00489|PYGM_RABIT): 2:2:2:2:1:1 Cytochrome C spike (sp|P62894|CYC_BOVIN): 1:1:1:1:1:2</Description> <ReviewLevel> <cvParam accession="PRIDE:0000414" cvRef="PRIDE" name="Peer-reviewed dataset"/> </ReviewLevel> <RepositorySupport> <cvParam accession="PRIDE:0000416" cvRef="PRIDE" name="Supported dataset by repository"/> </RepositorySupport> </DatasetSummary> <DatasetIdentifierList> <DatasetIdentifier> <cvParam accession="MS:1001919" cvRef="MS" value="PXD000001" name="ProteomeXchange accession number"/> </DatasetIdentifier> <DatasetIdentifier> <cvParam accession="MS:1001922" cvRef="MS" value="10.6019/PXD000001" name="Digital Object Identifier (DOI)"/> </DatasetIdentifier> </DatasetIdentifierList> <DatasetOriginList> <DatasetOrigin> <cvParam accession="PRIDE:0000402" cvRef="PRIDE" name="Original data"/> </DatasetOrigin> </DatasetOriginList> <SpeciesList> <Species> <cvParam accession="MS:1001469" cvRef="PSI-MS" value="Erwinia carotovora" name="taxonomy: scientific name"/> <cvParam accession="MS:1001467" cvRef="PSI-MS" value="554" name="taxonomy: NCBI TaxID"/> </Species> </SpeciesList> <InstrumentList> <Instrument id="INSTRUMENT_1"> <cvParam accession="MS:1000484" cvRef="MS" name="orbitrap"/> </Instrument> </InstrumentList> <ModificationList> <cvParam accession="MOD:01720" cvRef="MOD" name="TMT6plex-126 reporter+balance reagent acylated residue"/> <cvParam accession="MOD:00425" cvRef="MOD" name="monohydroxylated residue"/> <cvParam accession="MOD:01153" cvRef="MOD" name="methylthiolated residue"/> </ModificationList> <ContactList> <Contact id="Laurent_Gatto"> <cvParam accession="MS:1000586" cvRef="MS" value="Laurent Gatto" name="contact name"/> <cvParam accession="MS:1000589" cvRef="MS" value="lg390@cam.ac.uk" name="contact email"/> <cvParam accession="MS:1000590" cvRef="MS" value="University of Cambridge" name="contact affiliation"/> </Contact> <Contact id="Andy_Christoforou"> <cvParam accession="MS:1000586" cvRef="MS" value="Andy Christoforou" name="contact name"/> <cvParam accession="MS:1000590" cvRef="MS" value="Cambridge Centre for Proteomics, Cambridge System Biology Centre, University of Cambridge, Department of Biochemistry, Tennis Court Road, Cambridge, CB2 1QR, UK" name="contact affiliation"/> <cvParam accession="MS:1000585" cvRef="MS" value="ac587@cam.ac.uk" name="contact attribute"/> <cvParam accession="MS:1000589" cvRef="MS" value="ac587@cam.ac.uk" name="contact email"/> </Contact> <Contact id="Kathryn_S._Lilley"> <cvParam accession="MS:1000586" cvRef="MS" value="Kathryn S. Lilley" name="contact name"/> <cvParam accession="MS:1000590" cvRef="MS" value="Cambridge Centre for Proteomics, Cambridge System Biology Centre, University of Cambridge, Department of Biochemistry, Tennis Court Road, Cambridge, CB2 1QR, U" name="contact affiliation"/> <cvParam accession="MS:1000585" cvRef="MS" value="ksl23@cam.ac.uk" name="contact attribute"/> <cvParam accession="MS:1000589" cvRef="MS" value="ksl23@cam.ac.uk" name="contact email"/> </Contact> </ContactList> <PublicationList> <Publication id="PMID23692960"> <cvParam accession="MS:1000879" cvRef="MS" value="23692960" name="PubMed identifier"/> <cvParam accession="PRIDE:0000400" cvRef="PRIDE" value="Gatto L, Christoforou A. Using R and Bioconductor for proteomics data analysis. 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