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PXD034107-1

PXD034107 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleNematode gene annotation by machine learning assisted proteotranscriptomics enables proteome-wide evolutionary analysis
DescriptionNematodes encompass over 24,000 described species, which were discovered in almost every ecological habitat, and make up over 80% of metazoan taxonomic diversity in soils. The last common ancestor of nematodes is believed to date back to around 650–750 million years, generating a large and phylogenetically diverse group to be explored. However, for most species high quality gene annotations are incomprehensive or missing. Combining short-read RNA sequencing with mass spectrometry-based proteomics and machine learning quality control in an approach called proteotranscriptomics, we improve gene annotations for 9 genome-sequenced nematode species and provide new gene annotations for 3 additional species without genome assemblies. Emphasizing the sensitivity of our methodology, we provide evidence for two hitherto undescribed genes in the model organism Caenorhabditis elegans. Extensive phylogenetic systems analysis using this comprehensive proteome annotation provides new insights into evolutionary processes of this metazoan group.
HostingRepositoryPRIDE
AnnounceDate2022-11-12
AnnouncementXMLSubmission_2022-11-12_11:05:48.213.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterFButter
SpeciesList scientific name: Caenorhabditis elegans; NCBI TaxID: 6239;
ModificationListNo PTMs are included in the dataset
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02022-05-25 03:20:53ID requested
12022-11-12 11:05:48announced
Publication List
Dataset with its publication pending
Keyword List
submitter keyword: LC-MS/MS
proteotranscriptomics
Contact List
FalkButter
contact affiliationInstitute of Molecular Biology (IMB)
contact emailf.butter@imb.de
lab head
FButter
contact affiliationQuantitative Proteomics Institute of Molecular Biology (IMB)
contact emailf.butter@imb-mainz.de
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
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