PXD025589

PXD025589 is an original dataset announced via ProteomeXchange.

Title	Integrative proteogenomics for differential expression and splicing variation in a DM1 mouse model
Description	Here, we performed a large-scale coordinated transcriptomic and proteomic analysis to characterize a DM1 mouse model (HSALR) in comparison to wild-type. Our integrative proteogenomics approach comprised gene- and splicing-level assessments for mRNA and protein. It recapitulated many known instances of aberrant mRNA splicing in DM1 and identified new ones. It enabled the design and targeting of splicing-specific peptides and confirmed the translation of known instances of aberrantly spliced disease-related genes (e.g. Atp2a1, Bin1, Ryr1), complemented by novel findings (e.g. Ywhae, Flnc, Svil). Comparative analysis of large-scale mRNA and protein expression data showed remarkable agreement of differential patterns between disease and wild-type on both the gene and especially the splicing level.
HostingRepository	PRIDE
AnnounceDate	2024-01-26
AnnouncementXML	Submission_2024-01-26_06:54:43.550.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Elizaveta Solovyeva
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF; Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2021-04-23 06:20:27	ID requested
⏵ 1	2024-01-26 06:54:44	announced

10.1016/j.mcpro.2023.100683;

Solovyeva EM, Utzinger S, Vissi, è, res A, Mitchelmore J, Ahrn, é E, Hermes E, Poetsch T, Ronco M, Bidinosti M, Merkl C, Serluca FC, Fessenden J, Naumann U, Voshol H, Meyer AS, Hoersch S, Integrative Proteogenomics for Differential Expression and Splicing Variation in a DM1 Mouse Model. Mol Cell Proteomics, 23(1):100683(2024) [pubmed]

submitter keyword: mouse model,Proteogenomics, Transcriptomics, Alternative Splicing, Proteomics, Myotonic dystrophy type 1 (DM1)

Sebastian Hoersch
contact affiliation	Novartis Institute for BioMedical Research, Scientific Data Analysis group
contact email	sebastian.hoersch@novartis.com
lab head
Elizaveta Solovyeva
contact affiliation	NIBR
contact email	lisavetasol@gmail.com
dataset submitter

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.pride.ebi.ac.uk/pride/data/archive/2024/01/PXD025589

PRIDE project URI

• PRIDE
  1. PXD025589
     1. Label: PRIDE project
     2. Name: Integrative proteogenomics for differential expression and splicing variation in a DM1 mouse model