PXD047790
PXD047790 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | wild-type and LGI3-FH KI mouse brain TAP sample, Shotgun proteomics with label-free quantification |
| Description | The proteins in the tandem affinity purification (TAP) eluates from the wild-type control and Lgi3-FH KI mouse brains were concentrated by Trichloroacetic acid/acetone precipitation and redissolved in the denaturing buffer containing 7 M guanidine hydrochloride, 0.5M Tris-HCl (pH 8.5), and 10 mM EDTA. Then, proteins were reduced with dithiothreitol and alkylated with iodoacetamide, concentrated, and digested with trypsin at 37°C overnight (in-solution digestion). The obtained peptides were separated via nano-flow liquid chromatography (EASY-nLC1000, Thermo Fisher Scientific) using a reverse-phase C18 column (0.075 Å~ 125 mm; Nikkyo Technos). The liquid chromatography eluent was coupled to a nano ion spray source attached to an Orbitrap Elite mass spectrometer (Thermo Fisher Scientific). For shot-gun analysis including protein identification, label-free quantification, and volcano plot analyses, the Mascot2.6.1 (Matrix Science) and Proteome Discoverer2.2 software (Thermo Fisher Scientific) were used. Peptide and protein identifications were calculated with protein false discovery rate (FDR) < 0.01. No filtering was applied and obtained protein lists with a high FDR confidence (< 0.01) from control and LGI3-FH KI replicates were used for statistical analysis to compare protein abundances based on peak intensity. |
| HostingRepository | jPOST |
| AnnounceDate | 2023-12-14 |
| AnnouncementXML | Submission_2023-12-13_14:07:10.084.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Yuri MIYAZAKI |
| SpeciesList | scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; |
| ModificationList | S-carboxamidomethyl-L-cysteine; L-methionine sulfoxide |
| Instrument | LTQ Orbitrap Elite |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2023-12-13 04:58:38 | ID requested | |
| ⏵ 1 | 2023-12-13 14:07:10 | announced |
Publication List
| Dataset with its publication pending |
Keyword List
| submitter keyword: LGI3-FH KI mouse, brain, interactome, Shotgun proteomics |
Contact List
| Masaki Fukata | |
|---|---|
| lab head | |
| Yuri MIYAZAKI | |
| contact affiliation | Nagoya University Graduate School of Medicine |
| dataset submitter | |
Full Dataset Link List
| jPOST 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://ftp.jpostdb.org/JPST002419/ |
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