PXD069044

PXD069044 is an original dataset announced via ProteomeXchange.

Title	Key regulatory roles of PRDM1 in human NK-cell differentiation and activation
Description	PRDM1, encoding a transcription factor (TF), regulates plasma cell and CD8+ T-cell terminal differentiation and Th2 lineage specification, while its role in human NK-cell differentiation and homeostasis is largely unknown. Here, we employed a multi-omics approach to dissect the transcriptional control of PRDM1 on human NK-cells. We also employed the APEX2 proximity-based biotinylation method, which enables efficient biotin-labeling of proteins within ~20 nm radius. NK-cells expressing APEX2-tagged PRDM1 were cultured with feeders for 7 or 28 days for the analysis of proximity-labeled proteins. Of the 30 PRDM1-associated cofactors identified by RIME, 12 (40%) were also detected in the APEX2 assay. Consistent with the RIME assay, RUNX3, RUNX1, and CBF-β were also biotinylated by PRDM1- APEX2. A lot more cofactors were identified in the APEX2 experiment, including HDAC1/2, histone deacetylases present in multiple corepressor complexes, similar to a previous study in mouse plasmablasts.
HostingRepository	PRIDE
AnnounceDate	2026-01-19
AnnouncementXML	Submission_2026-01-18_16:14:24.392.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Nathaniel Hansen
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: NEWT:9606;
ModificationList	biotinylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-10-01 13:30:51	ID requested
⏵ 1	2026-01-18 16:14:25	announced

Liu X, Shi Y, Zhang J, Shetty K, Chew K, K, ü, ç, ü, k C, Gong Q, Esmeray E, Li H, Chen R, Pan S, D, ą, browska K, Moore RE, Garcia-Mansfield K, Pirrotte P, Wang J, Li Y, Dong G, Lee L, McKeithan TW, Iqbal J, Chan WC, Key regulatory roles of PRDM1 in human NK-cell differentiation and activation. Leukemia, 40(1):199-210(2026) [pubmed]

10.1038/s41375-025-02815-z;

submitter keyword: PRMD1, mass spectrometry, proximity labeling,NK-cells

Patrick Pirrotte
contact affiliation	Early Detection and Prevention, Translational Genomics Research Institute, Phoenix, AZ  Integrated Mass Spectrometry Shared Resource, City of Hope Comprehensive Cancer Center, Duarte, CA  (lab head)
contact email	ppirrotte@tgen.org
lab head
Nathaniel Hansen
contact affiliation	Translation Genomics Research Institute
contact email	nhansen@tgen.org
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD069044
     1. Label: PRIDE project
     2. Name: Key regulatory roles of PRDM1 in human NK-cell differentiation and activation