PXD039721
PXD039721 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Sample Agnostic Spectral Libraries Enable Quantitation of >9,300 Cerebrospinal Fluid Proteins Across Neurodegenerative Disease Patient Cohorts |
| Description | Proteomic analyses of mild cognitive impairment (MCI) and its frequent successor, Alzheimers Disease (AD), are necessary to elucidate means of early detection and putative therapeutic targets. Cerebrospinal fluid (CSF) offers the most direct observation of neurological protein perturbation but suffers from low sample availability and high dynamic range of protein expression. Here we present a modular framework to generate and employ sample agnostic spectral libraries to enhance profiling and quantitative depth. Utilizing an open-source machine learning approach to calibrate comprehensive libraries to new experimental conditions, we quantified 9,313 protein groups in CSF through data-independent acquisition (DIA) mass spectrometry, nearly a 14-fold increase compared to a traditional DIA workflow that uses a data-dependent acquisition (DDA) spectral library. Revealing 1,642 significantly dysregulated protein groups against healthy controls, this study not only validates a flexible approach towards comprehensive sample profiling but also provides understanding of protein targets useful for disease stratification and treatment. |
| HostingRepository | MassIVE |
| AnnounceDate | 2023-02-22 |
| AnnouncementXML | Submission_2023-02-22_12:51:12.369.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Graham Delafield |
| SpeciesList | scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; |
| ModificationList | Acetyl; Deamidated; Oxidation; Carbamidomethyl |
| Instrument | Q Exactive HF |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2023-01-27 12:53:05 | ID requested | |
| ⏵ 1 | 2023-02-22 12:51:12 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: Proteomics, Alzheimer's Disease, Data-Independent Acquisition, Machine Learning |
Contact List
| Lingjun Li | |
|---|---|
| contact affiliation | University of Wisconsin-Madison |
| contact email | lingjun.li@wisc.edu |
| lab head | |
| Graham Delafield | |
| contact affiliation | University of Wisconsin - Madison |
| contact email | delafield@wisc.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.ucsd.edu/MSV000091165/ |
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