PXD038077
PXD038077 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Dyakov_etal_Nuclear_Bodies_BioID_Map_2023 |
| Description | This dataset consists of the files for 334 BioID samples: .wiff and .wiff.scan raw MS files, .mzML peak files, and MSPLIT results files; all acquired on TripleTOF 6600 mass spectrometers operated in Data Independent Acquisition mode (SWATH). It also includes the sequence database used for analysis and the MSPLIT spectral library which was generated from paired samples acquired in Data Dependent Acquisition (DDA) mode. All sample generation, streptavidin affinity purification, mass spectrometric acquisition, and data analysis was performed by Boris Dyakov. 13 of the stable cell lines used in this study were generated in Anne-Claude Gingras’ lab by Ji-Young Youn and Wade Dunham (Lunenfeld-Tanenbaum Research Institute); 6 of the stable cell lines were generated in Eric Shoubridge’s lab (McGill University) by Hana Antonicka. The files are associated with a manuscript submitted for publication by Dyakov et al. that provides a spatial map of nuclear body-associated proteins with a focus on the paraspeckle and nuclear speckle. Refer to the corresponding table in the published manuscript for a full description of all baits used; 36/146 baits included in this dataset were previously used in earlier publications and collaborations from our group. Anne-Claude Gingras is the corresponding author of the manuscript and should be contacted for questions about this dataset (gingras@lunenfeld.ca). |
| HostingRepository | MassIVE |
| AnnounceDate | 2024-07-02 |
| AnnouncementXML | Submission_2024-07-02_23:07:04.254.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Gingras Lab |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | L-methionine sulfoxide |
| Instrument | TripleTOF 6600 |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2022-11-09 15:36:05 | ID requested | |
| ⏵ 1 | 2024-07-02 23:07:04 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: BioID, Proximity-dependent biotinylation, protein-protein interaction, spatial map, HEK293, Nuclear bodies, Condensates, Nucleus, Paraspeckle, Nuclear speckle, Nucleolus, Cajal body, PML body |
Contact List
| Anne-Claude Gingras | |
|---|---|
| contact affiliation | LTRI |
| contact email | gingras@lunenfeld.ca |
| lab head | |
| Gingras Lab | |
| contact affiliation | Samuel Lunenfeld Research Institute |
| contact email | gingras@mshri.on.ca |
| 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.ucsd.edu/v05/MSV000090684/ |
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