<?xml version="1.0" encoding="UTF-8" standalone="yes"?> <ProteomeXchangeDataset id="PXD012749" formatVersion="1.4.0" xsi:noNamespaceSchemaLocation="proteomeXchange-1.4.0.xsd" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"> <CvList> <Cv fullName="PSI-MS" uri="https://raw.githubusercontent.com/HUPO-PSI/psi-ms-CV/master/psi-ms.obo" id="MS"/> <Cv fullName="PSI-MOD" uri="https://raw.githubusercontent.com/MICommunity/psidev/master/psi/mod/data/PSI-MOD.obo" id="MOD"/> <Cv fullName="UNIMOD" uri="http://www.unimod.org/obo/unimod.obo" id="UNIMOD"/> </CvList> <ChangeLog> <ChangeLogEntry date="2019-10-11">Updated project metadata.</ChangeLogEntry> </ChangeLog> <DatasetSummary announceDate="2019-10-11" hostingRepository="PRIDE" title="Amorphous TiO2 Nanotubes as Platform for Highly Selective Phos-phopeptide Enrichment"> <Description>This work reports highly selective phosphopeptide enrichment using amorphous TiO2 nanotubes (TiO2NTs) and the same material decorated with superparamagnetic Fe3O4 nanoparticles (TiO2NTs@Fe3O4NPs). TiO2NTs and TiO2NTs@Fe3O4NPs materials were applied for phosphopeptide enrichment both from a simple peptide mixture (tryptic digest of bovine serum albumin and α-casein) as well as from a complex peptide mixture (tryptic digest of Jurkat T cell lysate). The obtained enrichment efficiency and selectivi-ty for phosphopeptides of TiO2NTs and TiO2NTs@Fe3O4NPs was excellent compared to those of the well-established TiO2 micro-spheres. The enrichment protocol was extended for a second elution step facilitating the identification of additional phosphopep-tides. It further turned out that both types of amorphous TiO2 nanotubes provide qualitatively new physico-chemical features that are clearly advantageous for highly selective phosphopeptide enrichment. This has been confirmed experimentally resulting in substantial reduction of non-phosphorylated peptides in the enriched samples. In addition, TiO2NTs@Fe3O4NPs combine a high selectivity with ease of handling due to the superparamagnetic character of the material. The presented materials and performances are further promising for applications towards a whole range of other types of biomolecules to be treated in similar fashion.</Description> <ReviewLevel> <cvParam cvRef="MS" accession="MS:1002854" name="Peer-reviewed dataset"/> </ReviewLevel> <RepositorySupport> <cvParam cvRef="MS" accession="MS:1002856" name="Supported dataset by repository"/> </RepositorySupport> </DatasetSummary> <DatasetIdentifierList> <DatasetIdentifier> <cvParam cvRef="MS" accession="MS:1001919" name="ProteomeXchange accession number" value="PXD012749"/> <cvParam cvRef="MS" accession="MS:1001921" name="ProteomeXchange accession number version number" value="2"/> </DatasetIdentifier> <DatasetIdentifier> <cvParam cvRef="MS" accession="MS:1001922" name="Digital Object Identifier (DOI)" value="10.6019/PXD012749"/> </DatasetIdentifier> </DatasetIdentifierList> <DatasetOriginList> <DatasetOrigin> <cvParam cvRef="MS" accession="MS:1002868" name="Original data"/> </DatasetOrigin> </DatasetOriginList> <SpeciesList> <Species> <cvParam cvRef="MS" accession="MS:1001469" name="taxonomy: scientific name" value="Homo sapiens (Human)"/> <cvParam cvRef="MS" accession="MS:1001467" name="taxonomy: NCBI TaxID" value="9606"/> </Species> </SpeciesList> <InstrumentList> <Instrument id="Instrument_1"> <cvParam cvRef="MS" accession="MS:1001911" name="Q Exactive"/> </Instrument> </InstrumentList> <ModificationList> <cvParam cvRef="UNIMOD" accession="UNIMOD:21" name="Phospho"/> <cvParam cvRef="UNIMOD" accession="UNIMOD:23" name="Dehydrated"/> <cvParam cvRef="UNIMOD" accession="UNIMOD:35" name="Oxidation"/> <cvParam cvRef="UNIMOD" accession="UNIMOD:1" name="Acetyl"/> <cvParam cvRef="UNIMOD" accession="UNIMOD:1" name="Acetyl"/> <cvParam cvRef="UNIMOD" accession="UNIMOD:4" name="Carbamidomethyl"/> <cvParam cvRef="UNIMOD" accession="UNIMOD:28" name="Gln->pyro-Glu"/> <cvParam cvRef="UNIMOD" accession="UNIMOD:26" name="Pyro-carbamidomethyl"/> </ModificationList> <ContactList> <Contact id="project_submitter"> <cvParam cvRef="MS" accession="MS:1000586" name="contact name" value="Pavel Rehulka"/> <cvParam cvRef="MS" accession="MS:1000589" name="contact email" value="pavel.rehulka@unob.cz"/> <cvParam cvRef="MS" accession="MS:1000590" name="contact affiliation" value="Department of Molecular Pathology and Biology FMHS UD, Trebesska 1575, CZ-50001 Hradec Kralove, Czech Republic"/> <cvParam cvRef="MS" accession="MS:1002037" name="dataset submitter"/> </Contact> <Contact id="project_lab_head"> <cvParam cvRef="MS" accession="MS:1002332" name="lab head"/> <cvParam cvRef="MS" accession="MS:1000586" name="contact name" value="Jiri Stulik"/> <cvParam cvRef="MS" accession="MS:1000589" name="contact email" value="jiri.stulik@unob.cz"/> <cvParam cvRef="MS" accession="MS:1000590" name="contact affiliation" value="Department of Molecular Pathology and Biology Faculty of Military Health Sciences, University of Defence Trebesska 1575, 50001 Hradec Kralove, Czech Republic"/> </Contact> </ContactList> <PublicationList> <Publication id="PMID31460330"> <cvParam cvRef="MS" accession="MS:1000879" name="PubMed identifier" value="31460330"/> <cvParam cvRef="MS" accession="MS:1002866" name="Reference" value="Kupcik R, Macak JM, Rehulkova H, Sopha H, Fabrik I, Anitha VC, Klimentova J, Murasova P, Bilkova Z, Rehulka P. Amorphous TiO2 Nanotubes as a Platform for Highly Selective Phosphopeptide Enrichment. ACS Omega. 2019 4(7):12156-12166"/> </Publication> </PublicationList> <KeywordList> <cvParam cvRef="MS" accession="MS:1001925" name="submitter keyword" value="phosphopeptide enrichment, nanotubes"/> <cvParam cvRef="MS" accession="MS:1001926" name="curator keyword" value="Technical"/> </KeywordList> <FullDatasetLinkList> <FullDatasetLink> <cvParam cvRef="MS" accession="MS:1002852" name="Dataset FTP location" value="ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2019/06/PXD012749"/> </FullDatasetLink> <FullDatasetLink> <cvParam cvRef="MS" accession="MS:1001930" name="PRIDE project URI" value="http://www.ebi.ac.uk/pride/archive/projects/PXD012749"/> </FullDatasetLink> </FullDatasetLinkList> <DatasetFileList> <DatasetFile id="FILE_1670" name="TNTM_PTNT_TIS_all-(1).mzid.gz"> <cvParam cvRef="MS" accession="MS:1002848" name="Result file URI" value="ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2019/06/PXD012749/TNTM_PTNT_TIS_all-(1).mzid.gz"/> </DatasetFile> <DatasetFile id="FILE_1671" 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