PXD032788 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Labeled quantitative proteomics dataset of optogenetics induced axon regeneration |
Description | This labeled quantitative proteomics dataset was collected from a transgenic channel rhodopsin mouse model (Chr2) subjected to light stimulation after traumatic optic nerve crush (ONC) was performed. Mouse models expressing channel rhodopsin were subjected to therapeutic light stimulation promoting axon regeneration of retinal ganglion cell (RGC) axons post optic nerve crush. Experimental mice and wild type control mice were euthanized, and optic nerves were collected. A protein extraction was carried out by careful mincing of the tissue in extraction buffer (TEAB, NaCl and SDS). Protein amount normalization across samples was achieved using dot blot densitometry using ImageJ software. Samples were labelled using a modified 16plex TMT (Tandem Mass Tag) kit for quantification after overnight trypsin digestion. Untargeted liquid chromatography-mass spectrometry was performed on an Easy-nLC 1000 liquid chromatograph coupled to a QExactive mass spectrometer (LC-MS/MS). Data analysis was performed using Proteome Discoverer 2.5. |
HostingRepository | PRIDE |
AnnounceDate | 2022-08-12 |
AnnouncementXML | Submission_2022-08-12_00:06:46.377.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD032788 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Sanjoy Bhattacharya |
SpeciesList | scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; |
ModificationList | acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2022-03-24 13:29:49 | ID requested | |
⏵ 1 | 2022-08-12 00:06:47 | announced | |
Publication List
Harvey FC, Mendoza X, Liu Y, Lee RK, Bhattacharya SK, Labeled quantitative proteomics dataset of optogenetics induced axon regeneration in mice. Data Brief, 42():108304(2022) [pubmed] |
Keyword List
submitter keyword: Axon regeneration, optogenetic stimulation, rhythmic light stimulation, quantitative proteome |
Contact List
Sanjoy K Bhattacharya |
contact affiliation | University of Miami Miller School of Medicine, Department of Ophthalmology, Miami Integrative Metabolomics Research Center, Bascom Palmer Eye Institute (McKnight Vision Research Center) |
contact email | sbhattacharya@med.miami.edu |
lab head | |
Sanjoy Bhattacharya |
contact affiliation | Bascom Palmer Eye Institute, Department of Ophthalmology, Miller School of Medicine at University of Miami, Miami, FL 33136, USA |
contact email | sbhattacharya@med.miami.edu |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
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- PRIDE
- PXD032788
- Label: PRIDE project
- Name: Labeled quantitative proteomics dataset of optogenetics induced axon regeneration