PXD044937
PXD044937 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Multiomics Sample Preparation Workflow for Simultaneous Cleanup of DNA, RNA, and Proteins using ProMTag |
| Description | Typical multiomics studies employ separate methods for DNA, RNA, and protein sample preparation, which is labor intensive, costly, and prone to sampling bias. We describe here a method for preparing high-quality DNA, RNA, and protein or peptides for whole genome sequencing, RNA sequencing, and whole proteome analysis from a single sample. This method utilizes a reversible protein tagging scheme to covalently link all proteins in a lysate to a bead-based matrix and nucleic acid precipitation and selective solubilization to yield separate pools of protein and nucleic acids. The proteins are then digested to generate peptides ready for mass spectrometric proteome analysis. We demonstrate the utility of this method to compare the genomes, transcriptomes, and proteomes of four triple-negative breast cancer cell lines with different degrees of malignancy. These data show the involvement of both RNA and associated proteins, and protein-only dependent pathways that distinguish these cell lines. We also demonstrate the utility of this multiomics workflow for tissue analysis using mouse brain, liver and lung tissue. |
| HostingRepository | MassIVE |
| AnnounceDate | 2025-02-20 |
| AnnouncementXML | Submission_2025-02-20_11:24:51.682.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Stephanie Byrum |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | Oxidation |
| Instrument | Orbitrap Exploris 480 |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2023-08-29 10:38:17 | ID requested | |
| ⏵ 1 | 2025-02-20 11:24:52 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: multi-omics, triple-negative breast cancer |
Contact List
| Jonathan Minden | |
|---|---|
| contact affiliation | Carnegie Mellon University |
| contact email | minden@andrew.cmu.edu |
| lab head | |
| Stephanie Byrum | |
| contact affiliation | St Jude Children's Research Hospital |
| contact email | sbyrum@stjude.org |
| 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/v06/MSV000092780/ |
to receive all new ProteomeXchange dataset release announcements!
