⮝ Full datasets listing
PXD065063-1
PXD065063 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | In Depth Characterization of the Promoter Proximal Proteome of Single Copy Locus FOXP2 |
| Description | A study to determine the molecular factors interacting with the active, upstream promoter of the transcription factor FOXP2 in HEK293 cells. Promoter-interacting proteins were tagged via proximity labeling with dCas9-APEX2 leveraging three gRNAs tiling the promoter and two negative controls: untargeted no gRNA with labeling (1) and with exclusion of biotin phenol to prevent labeling (2). Tagged proteins from three independent biological replicates were purified with streptavidin and peptides were prepared by on bead digestion with trypsin/LysC. Digested peptides were labeled with TMTpro 18-plex reagents according to the following scheme: g2 Rep1:126; g2 Rep2:127N; g1 Rep3:127C; g1 Rep1:128N; NoG+ Rep3:128C; NoG+ Rep1:129N; NoG- Rep1:129C; empty:130N; NoG+ Rep2:130C; NoG- Rep2:131N; g3 Rep3:131C; g3 Rep1:132N; g3 Rep2:132C; sample pool: 133N; g1 Rep2:133C; NoG- Rep3:134N; g2 Rep3:134C; empty:135N. Peptides were separated with online 2D-LC high pH/low pH twelve-step fractionation and directly injected to a Thermo Ascend tribrid mass spectrometer for data acquisition via RTS-SPS-MS3. |
| HostingRepository | MassIVE |
| AnnounceDate | 2026-02-04 |
| AnnouncementXML | Submission_2026-02-04_12:46:45.313.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Tim MG MacKenzie |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | Carbamidomethyl; TMTpro; Acetyl; Oxidation |
| Instrument | Orbitrap Ascend |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2025-06-16 09:58:02 | ID requested | |
| ⏵ 1 | 2026-02-04 12:46:45 | announced |
Publication List
| Tim MG MacKenzie, Lucia Ramirez, Ruiqi Jian, Lihua Jiang, Michael P Snyder. Comprehensive Characterization of the Promoter Proximal Proteome of Single Copy Locus FOXP2. https://www.biorxiv.org/content/10.1101/2025.07.10.663086v1. |
Keyword List
| submitter keyword: Transcription Factors, Proximity Labeling, Locus-Specific Chromatin Proteomics, FOXP2, dCas9-APEX2, Tribrid Mass Spectrometer, 2D-LC-TMT-RTS-SPS-MS3, DatasetType:Proteomics |
Contact List
| Tim MacKenzie | |
|---|---|
| contact affiliation | Stanford University |
| contact email | tmackenz@stanford.edu |
| lab head | |
| Michael Snyder | |
| contact affiliation | Stanford University |
| contact email | mpsnyder@stanford.edu |
| lab head | |
| Tim MG MacKenzie | |
| contact affiliation | Stanford University |
| contact email | tmackenz@stanford.edu |
| dataset submitter | |
Full Dataset Link List
| MassIVE dataset URI |
| Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive-ftp.ucsd.edu/v10/MSV000098217/ |
