PXD048843

PXD048843 is an original dataset announced via ProteomeXchange.

Title	Proteogenomics analysis to identify acquired resistance-specific alterations in melanoma PDXs on MAPKi therapy
Description	Therapeutic approaches to treat melanoma include small molecule drugs that target activating protein mutations in pro-growth signaling pathways like the MAPK pathway. While beneficial to the approximately 50% of patients with activating BRAFV600 mutation, mono- and combination therapy with MAPK inhibitors is ultimately associated with acquired resistance. To better characterize the mechanisms of MAPK inhibitor resistance in melanoma, we utilize patient-derived xenografts and apply proteogenomic approaches leveraging genomic, transcriptomic, and proteomic technologies that permit the identification of resistance-specific alterations and therapeutic vulnerabilities. A specific challenge for proteogenomic applications comes at the level of data curation to enable multi-omics data integration. Here, we present a proteogenomic approach that uses custom curated databases to identify unique resistance-specific alternations in melanoma PDX models of acquired MAPK inhibitor resistance. We demonstrate this approach with a NRASQ61L melanoma PDX model from which resistant tumors were developed following treatment with a MEK inhibitor. Our multi-omics strategy addresses current challenges in bioinformatics by leveraging development of custom curated proteogenomics databases derived from individual resistant melanoma that evolves following MEK inhibitor treatment and is scalable to comprehensively characterize acquired MAPK inhibitor resistance across patient-specific models and genomic subtypes of melanoma.
HostingRepository	MassIVE
AnnounceDate	2024-01-24
AnnouncementXML	Submission_2024-01-24_11:34:33.371.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Stephanie Byrum
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	Oxidation; Carbamidomethyl
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2024-01-24 09:20:08	ID requested
⏵ 1	2024-01-24 11:34:33	announced

no publication

submitter keyword: proteogenomics, melanoma, patient-derived xenograft

Stephanie Byrum
contact affiliation	University of Arkansas for Medical Sciences
contact email	sbyrum@uams.edu
lab head
Stephanie Byrum
contact affiliation	University of Arkansas for Medical Sciences
contact email	sbyrum@uams.edu
dataset submitter

MassIVE dataset URI

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