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PXD054765

PXD054765 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleCharacterization of endosomes and interactions from TMEM230 and TMEM9/9B mutants in human neurons
DescriptionEndoMAP aims to systematically dissect the human endosomal protein complexes. To examine TMEM9 and TMEM230 interactions, we generated TMEM230 and TMEM9 knockouts (KOs) using CRISPR/Cas9 in human embryonic stem (ES) cells and converted the cells to induced neurons (iNeurons). TMEM230 and TMEM9 were immunoprecipitated (IP) on day-21 iNeurons and analyzed by TMT-MS, using the respective KOs as a negative control. In addition, TMEM230 immunoprecipitations were performed in TMEM230 KO iNeurons expressing WT and individual disease variant of TMEM230 (Y29C, R78L, and X121W), as well as a triple mutant carrying all three variants. To examine the impact of TMEM230 mutations and TMEM9/9B loss on total and endosomal proteome, we additionally generated TMEM230(X121W) and TMEM9/TMEM9B double knockout (DKO) in ES cells. The proteome of post-nuclear supernatant (PNS) and purified endosomes (Endo-IP) from WT, TMEM230 KO, and TMEM230(X121W) iNeurons were analyzed by TMT-MS. The proteome of PNS and purified endosomes (Endo-IP) from TMEM9 KO and two clones of TMEM9/9B DKO iNeurons were analyzed by TMT-MS.
HostingRepositoryPRIDE
AnnounceDate2025-05-30
AnnouncementXMLSubmission_2025-05-30_02:37:41.575.xml
DigitalObjectIdentifierhttps://dx.doi.org/10.6019/PXD054765
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterMiguel A. Gonzalez-Lozano
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListTMT6plex-126 reporter+balance reagent acylated residue; iodoacetamide derivatized residue
InstrumentOrbitrap Eclipse
Dataset History
RevisionDatetimeStatusChangeLog Entry
02024-08-09 12:23:50ID requested
12025-03-29 12:25:20announced
22025-05-30 02:37:41announced2025-05-30: Updated project metadata.
Publication List
10.1038/S41586-025-09059-Y;
10.6019/PXD054765;
Keyword List
submitter keyword: TMT, Human, TMEM9, Endosomes, iNeurons, TMEM230,EndoMAP
Contact List
J. Wade Harper
contact affiliationDepartment of Cell Biology, Harvard Medical School, Boston MA
contact emailwade_harper@hms.harvard.edu
lab head
Miguel A. Gonzalez-Lozano
contact affiliationDepartment of Cell Biology, Harvard Medical School, Boston MA
contact emailmiguel_gonzalezlozano@hms.harvard.edu
dataset submitter
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Dataset FTP location
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