{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,2]],"date-time":"2026-09-02T17:16:52Z","timestamp":1788369412007,"version":"build-2803163510"},"reference-count":98,"publisher":"Elsevier BV","issue":"8","license":[{"start":{"date-parts":[[2025,8,1]],"date-time":"2025-08-01T00:00:00Z","timestamp":1754006400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2025,8,1]],"date-time":"2025-08-01T00:00:00Z","timestamp":1754006400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2025,7,13]],"date-time":"2025-07-13T00:00:00Z","timestamp":1752364800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100004836","name":"Independent Research Fund Denmark","doi-asserted-by":"publisher","award":["2032-00311B"],"award-info":[{"award-number":["2032-00311B"]}],"id":[{"id":"10.13039\/501100004836","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100009708","name":"Novo Nordisk Fonden","doi-asserted-by":"publisher","award":["NNF19SA0035440"],"award-info":[{"award-number":["NNF19SA0035440"]}],"id":[{"id":"10.13039\/501100009708","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100009708","name":"Novo Nordisk Fonden","doi-asserted-by":"publisher","award":["NNF13OC0006477"],"award-info":[{"award-number":["NNF13OC0006477"]}],"id":[{"id":"10.13039\/501100009708","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100009708","name":"Novo Nordisk Fonden","doi-asserted-by":"publisher","award":["NNF14CC0001"],"award-info":[{"award-number":["NNF14CC0001"]}],"id":[{"id":"10.13039\/501100009708","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100009708","name":"Novo Nordisk Fonden","doi-asserted-by":"publisher","award":["NNF24SA0098829"],"award-info":[{"award-number":["NNF24SA0098829"]}],"id":[{"id":"10.13039\/501100009708","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100009708","name":"Novo Nordisk Fonden","doi-asserted-by":"publisher","award":["NNF23SA0084103"],"award-info":[{"award-number":["NNF23SA0084103"]}],"id":[{"id":"10.13039\/501100009708","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008363","name":"Danish Cancer Society","doi-asserted-by":"publisher","award":["R325-A18824"],"award-info":[{"award-number":["R325-A18824"]}],"id":[{"id":"10.13039\/100008363","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["mcponline.org","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Molecular & Cellular Proteomics"],"published-print":{"date-parts":[[2025,8]]},"DOI":"10.1016\/j.mcpro.2025.101034","type":"journal-article","created":{"date-parts":[[2025,7,15]],"date-time":"2025-07-15T19:24:00Z","timestamp":1752607440000},"page":"101034","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":6,"title":["Multi-omics Characterization of Acquired Olaparib Resistance in BRCA1 and BRCA2 Mutant Breast Cancer Cell Lines"],"prefix":"10.1016","volume":"24","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-6406-161X","authenticated-orcid":false,"given":"Holda A.","family":"Anagho-Mattanovich","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0009-6809-7121","authenticated-orcid":false,"given":"Meeli","family":"Mullari","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7561-7898","authenticated-orcid":false,"given":"Matthias","family":"Anagho-Mattanovich","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Hayoung","family":"Cho","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Anna-Kathrine","family":"Pedersen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8825-8465","authenticated-orcid":false,"given":"Oana","family":"Palasca","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jesper V.","family":"Olsen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2879-9224","authenticated-orcid":false,"given":"Marie","family":"Locard-Paulet","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0067-9039","authenticated-orcid":false,"given":"Michael L.","family":"Nielsen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.mcpro.2025.101034_bib1","doi-asserted-by":"crossref","first-page":"511","DOI":"10.1016\/S1097-2765(00)80202-6","article-title":"Brca1 controls homology-directed DNA repair","volume":"4","author":"Moynahan","year":"1999","journal-title":"Mol. Cell"},{"key":"10.1016\/j.mcpro.2025.101034_bib2","doi-asserted-by":"crossref","first-page":"263","DOI":"10.1016\/S1097-2765(01)00174-5","article-title":"BRCA2 is required for homology-directed repair of chromosomal breaks","volume":"7","author":"Moynahan","year":"2001","journal-title":"Mol. Cell"},{"key":"10.1016\/j.mcpro.2025.101034_bib3","doi-asserted-by":"crossref","first-page":"5784","DOI":"10.1038\/sj.onc.1206678","article-title":"Roles of BRCA1 and BRCA2 in homologous recombination, DNA replication fidelity and the cellular response to ionizing radiation","volume":"22","author":"Powell","year":"2003","journal-title":"Oncogene"},{"key":"10.1016\/j.mcpro.2025.101034_bib4","doi-asserted-by":"crossref","first-page":"110","DOI":"10.1038\/nrc.2015.21","article-title":"BRCAness revisited","volume":"16","author":"Lord","year":"2016","journal-title":"Nat. Rev. Cancer"},{"key":"10.1016\/j.mcpro.2025.101034_bib5","doi-asserted-by":"crossref","first-page":"917","DOI":"10.1038\/nature03445","article-title":"Targeting the DNA repair defect in BRCA mutant cells as a therapeutic strategy","volume":"434","author":"Farmer","year":"2005","journal-title":"Nature"},{"key":"10.1016\/j.mcpro.2025.101034_bib6","doi-asserted-by":"crossref","first-page":"913","DOI":"10.1038\/nature03443","article-title":"Specific killing of BRCA2-deficient tumours with inhibitors of poly(ADP-ribose) polymerase","volume":"434","author":"Bryant","year":"2005","journal-title":"Nature"},{"key":"10.1016\/j.mcpro.2025.101034_bib7","doi-asserted-by":"crossref","first-page":"172","DOI":"10.1016\/0968-0004(94)90280-1","article-title":"Poly(ADP-ribose) polymerase: a molecular nick-sensor","volume":"19.4","author":"de Murcia","year":"1994","journal-title":"Trends Biochem. Sci."},{"key":"10.1016\/j.mcpro.2025.101034_bib8","doi-asserted-by":"crossref","first-page":"5526","DOI":"10.1093\/nar\/gkg761","article-title":"A requirement for PARP-1 for the assembly or stability of XRCC1 nuclear foci at sites of oxidative DNA damage","volume":"31","author":"El-Khamisy","year":"2003","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.mcpro.2025.101034_bib9","doi-asserted-by":"crossref","first-page":"610","DOI":"10.1038\/nrm.2017.53","article-title":"The multifaceted roles of PARP1 in DNA repair and chromatin remodelling","volume":"18","author":"Ray Chaudhuri","year":"2017","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"10.1016\/j.mcpro.2025.101034_bib10","doi-asserted-by":"crossref","first-page":"17860","DOI":"10.1074\/jbc.274.25.17860","article-title":"PARP-2, a novel mammalian DNA damage-dependent poly(ADP-ribose) polymerase","volume":"274","author":"Am\u00e9","year":"1999","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.mcpro.2025.101034_bib11","doi-asserted-by":"crossref","first-page":"432","DOI":"10.1016\/j.molcel.2016.03.008","article-title":"HPF1\/C4orf27 is a PARP-1-interacting protein that regulates PARP-1 ADP-ribosylation activity","volume":"62","author":"Gibbs-Seymour","year":"2016","journal-title":"Mol. Cell"},{"key":"10.1016\/j.mcpro.2025.101034_bib12","doi-asserted-by":"crossref","first-page":"932","DOI":"10.1016\/j.molcel.2017.01.003","article-title":"Serine ADP-ribosylation depends on HPF1","volume":"65","author":"Bonfiglio","year":"2017","journal-title":"Mol. Cell"},{"key":"10.1016\/j.mcpro.2025.101034_bib13","doi-asserted-by":"crossref","first-page":"609","DOI":"10.1038\/s41586-020-2725-7","article-title":"Bridging of DNA breaks activates PARP2\u2013HPF1 to modify chromatin","volume":"585","author":"Bilokapic","year":"2020","journal-title":"Nature"},{"key":"10.1016\/j.mcpro.2025.101034_bib14","article-title":"HPF1 completes the PARP active site for DNA damage-induced ADP-ribosylation","volume":"1","author":"Suskiewicz","year":"2020","journal-title":"Nature"},{"key":"10.1016\/j.mcpro.2025.101034_bib15","first-page":"1","article-title":"HPF1 remodels the active site of PARP1 to enable the serine ADP-ribosylation of histones","volume":"12","author":"Sun","year":"2021","journal-title":"Nat. Commun."},{"key":"10.1016\/j.mcpro.2025.101034_bib16","doi-asserted-by":"crossref","first-page":"245","DOI":"10.3390\/jpm11040245","article-title":"Germline mutations in other homologous recombination repair-related genes than BRCA1\/2\u202f: predictive or prognostic factors\u202f?","volume":"11","author":"Cortesi","year":"2021","journal-title":"J. Pers. Med."},{"key":"10.1016\/j.mcpro.2025.101034_bib17","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1016\/j.ejca.2023.01.031","article-title":"OlympiAD extended follow-up for overall survival and safety: olaparib versus chemotherapy treatment of physician's choice in patients with a germline BRCA mutation and HER2-negative metastatic breast cancer","volume":"184","author":"Robson","year":"2023","journal-title":"Eur. J. Cancer"},{"key":"10.1016\/j.mcpro.2025.101034_bib18","doi-asserted-by":"crossref","first-page":"753","DOI":"10.1056\/NEJMoa1802905","article-title":"Talazoparib in patients with advanced breast cancer and a germline BRCA mutation","volume":"379","author":"Litton","year":"2018","journal-title":"N. Engl. J. Med."},{"key":"10.1016\/j.mcpro.2025.101034_bib19","doi-asserted-by":"crossref","first-page":"422","DOI":"10.1002\/path.4140","article-title":"Secondary mutations in BRCA2 associated with clinical resistance to a PARP inhibitor","volume":"229","author":"Barber","year":"2013","journal-title":"J. Pathol."},{"key":"10.1016\/j.mcpro.2025.101034_bib20","doi-asserted-by":"crossref","first-page":"1111","DOI":"10.1038\/nature06548","article-title":"Resistance to therapy caused by intragenic deletion in BRCA2","volume":"451","author":"Edwards","year":"2008","journal-title":"Nature"},{"key":"10.1016\/j.mcpro.2025.101034_bib21","doi-asserted-by":"crossref","first-page":"184","DOI":"10.1016\/j.clbc.2017.12.010","article-title":"BRCA2 reversion mutation associated with acquired resistance to olaparib in estrogen receptor-positive breast cancer detected by genomic profiling of tissue and liquid biopsy","volume":"18","author":"Gornstein","year":"2018","journal-title":"Clin. Breast Cancer"},{"key":"10.1016\/j.mcpro.2025.101034_bib22","doi-asserted-by":"crossref","first-page":"1240","DOI":"10.1200\/JCO.2016.71.3677","article-title":"Somatic BRCA1\/2 recovery as a resistance mechanism after exceptional response to poly (ADP-ribose) polymerase inhibition","volume":"35","author":"Lheureux","year":"2017","journal-title":"J. Clin. Oncol."},{"key":"10.1016\/j.mcpro.2025.101034_bib23","doi-asserted-by":"crossref","first-page":"984","DOI":"10.1158\/2159-8290.CD-17-0419","article-title":"Secondary somatic mutations restoring RAD51C and RAD51D associated with acquired resistance to the PARP inhibitor Rucaparib in high-grade ovarian carcinoma","volume":"7","author":"Kondrashova","year":"2017","journal-title":"Cancer Discov."},{"key":"10.1016\/j.mcpro.2025.101034_bib24","doi-asserted-by":"crossref","DOI":"10.1093\/jnci\/djw148","article-title":"Mechanisms of therapy resistance in patient-derived xenograft models of BRCA1-deficient breast cancer","volume":"108","author":"Ter Brugge","year":"2016","journal-title":"J. Natl. Cancer Inst."},{"key":"10.1016\/j.mcpro.2025.101034_bib25","doi-asserted-by":"crossref","first-page":"431","DOI":"10.1038\/bjc.2016.203","article-title":"ABCB1 (MDR1) induction defines a common resistance mechanism in paclitaxel- and olaparib-resistant ovarian cancer cells","volume":"115","author":"Vaidyanathan","year":"2016","journal-title":"Br. J. Cancer"},{"key":"10.1016\/j.mcpro.2025.101034_bib26","doi-asserted-by":"crossref","first-page":"1295","DOI":"10.1038\/s41467-019-09312-9","article-title":"Multiple ABCB1 transcriptional fusions in drug resistant high-grade serous ovarian and breast cancer","volume":"10","author":"Christie","year":"2019","journal-title":"Nat. Commun."},{"key":"10.1016\/j.mcpro.2025.101034_bib27","doi-asserted-by":"crossref","first-page":"1849","DOI":"10.1038\/s41467-018-03917-2","article-title":"Genome-wide and high-density CRISPR-Cas9 screens identify point mutations in PARP1 causing PARP inhibitor resistance","volume":"9","author":"Pettitt","year":"2018","journal-title":"Nat. Commun."},{"key":"10.1016\/j.mcpro.2025.101034_bib28","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0061520","article-title":"A genetic screen using the PiggyBac transposon in haploid cells identifies Parp1 as a mediator of olaparib toxicity","volume":"8","author":"Pettitt","year":"2013","journal-title":"PLoS One"},{"key":"10.1016\/j.mcpro.2025.101034_bib29","doi-asserted-by":"crossref","first-page":"1078","DOI":"10.1016\/j.ccell.2018.05.008","article-title":"Selective loss of PARG restores PARylation and counteracts PARP inhibitor-mediated synthetic lethality","volume":"33","author":"Gogola","year":"2018","journal-title":"Cancer Cell"},{"key":"10.1016\/j.mcpro.2025.101034_bib30","article-title":"A site-specific analysis of the ADP-Ribosylome unveils Homogeneous DNA Damage-Induced Serine ADP-Ribosylation across wild-type and BRCA-mutant Breast Cancer cell lines","author":"Anagho","year":"2023","journal-title":"bioRxiv"},{"key":"10.1016\/j.mcpro.2025.101034_bib31","doi-asserted-by":"crossref","first-page":"755","DOI":"10.1038\/nsmb.3252","article-title":"FANCD2 limits replication stress and genome instability in cells lacking BRCA2","volume":"23","author":"Michl","year":"2016","journal-title":"Nat. Struct. Mol. Biol."},{"key":"10.1016\/j.mcpro.2025.101034_bib32","doi-asserted-by":"crossref","first-page":"820","DOI":"10.1016\/j.tcb.2019.07.008","article-title":"PARP inhibitor resistance: a tug-of-war in BRCA-mutated cells","volume":"29","author":"Noordermeer","year":"2019","journal-title":"Trends Cell Biol."},{"key":"10.1016\/j.mcpro.2025.101034_bib33","doi-asserted-by":"crossref","first-page":"164","DOI":"10.1097\/MOG.0b013e32801b3c8f","article-title":"The regulation of nicotinamide adenine dinucleotide biosynthesis by Nampt\/PBEF\/visfatin in mammals","volume":"23","author":"Revollo","year":"2007","journal-title":"Curr. Opin. Gastroenterol."},{"key":"10.1016\/j.mcpro.2025.101034_bib34","doi-asserted-by":"crossref","first-page":"15","DOI":"10.1093\/bioinformatics\/bts635","article-title":"STAR: ultrafast universal RNA-seq aligner","volume":"29","author":"Dobin","year":"2013","journal-title":"Bioinformatics"},{"key":"10.1016\/j.mcpro.2025.101034_bib35","doi-asserted-by":"crossref","first-page":"3047","DOI":"10.1093\/bioinformatics\/btw354","article-title":"MultiQC: summarize analysis results for multiple tools and samples in a single report","volume":"32","author":"Ewels","year":"2016","journal-title":"Bioinformatics"},{"key":"10.1016\/j.mcpro.2025.101034_bib36","doi-asserted-by":"crossref","first-page":"R80","DOI":"10.1186\/gb-2004-5-10-r80","article-title":"Bioconductor: open software development for computational biology and bioinformatics","volume":"5","author":"Gentleman","year":"2004","journal-title":"Genome Biol."},{"key":"10.1016\/j.mcpro.2025.101034_bib37","doi-asserted-by":"crossref","first-page":"550","DOI":"10.1186\/s13059-014-0550-8","article-title":"Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2","volume":"15","author":"Love","year":"2014","journal-title":"Genome Biol."},{"key":"10.1016\/j.mcpro.2025.101034_bib38","doi-asserted-by":"crossref","first-page":"1297","DOI":"10.1101\/gr.107524.110","article-title":"The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data","volume":"20","author":"McKenna","year":"2010","journal-title":"Genome Res."},{"key":"10.1016\/j.mcpro.2025.101034_bib39","doi-asserted-by":"crossref","DOI":"10.1093\/nar\/gkq603","article-title":"ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data","volume":"38","author":"Wang","year":"2010","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.mcpro.2025.101034_bib40","doi-asserted-by":"crossref","first-page":"1747","DOI":"10.1101\/gr.239244.118","article-title":"Maftools: efficient and comprehensive analysis of somatic variants in cancer","volume":"28","author":"Mayakonda","year":"2018","journal-title":"Genome Res."},{"key":"10.1016\/j.mcpro.2025.101034_bib41","first-page":"231","article-title":"Proteome-wide identification of in vivo ADP-ribose acceptor sites by liquid chromatography\u2013tandem mass spectrometry","volume":"1608","author":"Larsen","year":"2018","journal-title":"Methods Mol. Biol."},{"key":"10.1016\/j.mcpro.2025.101034_bib42","doi-asserted-by":"crossref","first-page":"251","DOI":"10.1007\/978-1-0716-2891-1_15","article-title":"Characterizing ADP-ribosylation sites using Af1521 enrichment coupled to ETD-based mass spectrometry","volume":"2609","author":"Anagho","year":"2022","journal-title":"Methods Mol. Biol."},{"key":"10.1016\/j.mcpro.2025.101034_bib43","doi-asserted-by":"crossref","first-page":"1010","DOI":"10.1074\/mcp.TIR119.001315","article-title":"An advanced strategy for comprehensive profiling of ADP-ribosylation sites using mass spectrometry-based proteomics","volume":"18","author":"Hendriks","year":"2019","journal-title":"Mol. Cell Proteomics"},{"key":"10.1016\/j.mcpro.2025.101034_bib44","doi-asserted-by":"crossref","first-page":"716","DOI":"10.1074\/mcp.TIR119.001906","article-title":"A compact quadrupole-orbitrap mass spectrometer with FAIMS interface improves proteome coverage in short LC gradients","volume":"19","author":"Bekker-Jensen","year":"2020","journal-title":"Mol. Cell Proteomics"},{"key":"10.1016\/j.mcpro.2025.101034_bib45","doi-asserted-by":"crossref","first-page":"2513","DOI":"10.1074\/mcp.M113.031591","article-title":"Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ","volume":"13","author":"Cox","year":"2014","journal-title":"Mol. Cell Proteomics"},{"key":"10.1016\/j.mcpro.2025.101034_bib46","doi-asserted-by":"crossref","first-page":"731","DOI":"10.1038\/nmeth.3901","article-title":"The Perseus computational platform for comprehensive analysis of (prote)omics data","volume":"13","author":"Tyanova","year":"2016","journal-title":"Nat. Methods"},{"key":"10.1016\/j.mcpro.2025.101034_bib47","doi-asserted-by":"crossref","first-page":"5116","DOI":"10.1073\/pnas.091062498","article-title":"Significance analysis of microarrays applied to the ionizing radiation response","volume":"98","author":"Tusher","year":"2001","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"10.1016\/j.mcpro.2025.101034_bib48","article-title":"Fast gene set enrichment analysis","author":"Korotkevich","year":"2021","journal-title":"Biorxiv"},{"key":"10.1016\/j.mcpro.2025.101034_bib49","doi-asserted-by":"crossref","DOI":"10.1093\/bioinformatics\/btac757","article-title":"GSEApy: a comprehensive package for performing gene set enrichment analysis in Python","volume":"39","author":"Fang","year":"2023","journal-title":"Bioinformatics"},{"key":"10.1016\/j.mcpro.2025.101034_bib50","doi-asserted-by":"crossref","first-page":"637","DOI":"10.1021\/acs.jproteome.2c00651","article-title":"Cytoscape stringApp 2.0: analysis and visualization of heterogeneous biological networks","volume":"22","author":"Doncheva","year":"2023","journal-title":"J. Proteome Res."},{"key":"10.1016\/j.mcpro.2025.101034_bib51","doi-asserted-by":"crossref","first-page":"3726","DOI":"10.1038\/s41467-020-17127-2","article-title":"Combining PARP with ATR inhibition overcomes PARP inhibitor and platinum resistance in ovarian cancer models","volume":"11","author":"Kim","year":"2020","journal-title":"Nat. Commun."},{"key":"10.1016\/j.mcpro.2025.101034_bib52","doi-asserted-by":"crossref","first-page":"17041","DOI":"10.1073\/pnas.1305170110","article-title":"Stabilization of mutant BRCA1 protein confers PARP inhibitor and platinum resistance","volume":"110","author":"Johnson","year":"2013","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"10.1016\/j.mcpro.2025.101034_bib53","doi-asserted-by":"crossref","first-page":"364","DOI":"10.1016\/j.annonc.2024.01.003","article-title":"Longitudinal profiling identifies co-occurring BRCA1\/2 reversions, TP53BP1, RIF1 and PAXIP1 mutations in PARP inhibitor-resistant advanced breast cancer","volume":"35","author":"Harvey-Jones","year":"2024","journal-title":"Ann. Oncol."},{"key":"10.1016\/j.mcpro.2025.101034_bib54","doi-asserted-by":"crossref","first-page":"41","DOI":"10.1158\/0008-5472.CAN-05-2853","article-title":"BRCA1 mutation analysis of 41 human breast cancer cell lines reveals three new deleterious mutants","volume":"66","author":"Elstrodt","year":"2006","journal-title":"Cancer Res."},{"key":"10.1016\/j.mcpro.2025.101034_bib55","doi-asserted-by":"crossref","first-page":"53007","DOI":"10.1074\/jbc.M310182200","article-title":"Detection of protein folding defects caused by BRCA1-BRCT truncation and missense mutations","volume":"278","author":"Williams","year":"2003","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.mcpro.2025.101034_bib56","doi-asserted-by":"crossref","first-page":"14537","DOI":"10.1074\/jbc.C000881200","article-title":"The RING heterodimer BRCA1-BARD1 is a ubiquitin ligase inactivated by a breast cancer-derived mutation","volume":"276","author":"Hashizume","year":"2001","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.mcpro.2025.101034_bib57","doi-asserted-by":"crossref","first-page":"430","DOI":"10.1038\/ng1296-430","article-title":"Identification of a RING protein that can interact in vivo with the BRCA1 gene product","volume":"14","author":"Wu","year":"1996","journal-title":"Nat. Genet."},{"key":"10.1016\/j.mcpro.2025.101034_bib58","doi-asserted-by":"crossref","first-page":"3627","DOI":"10.1111\/bph.15506","article-title":"BBIT20 inhibits homologous DNA repair with disruption of the BRCA1-BARD1 interaction in breast and ovarian cancer","volume":"178","author":"Raimundo","year":"2021","journal-title":"Br. J. Pharmacol."},{"key":"10.1016\/j.mcpro.2025.101034_bib59","doi-asserted-by":"crossref","first-page":"2012","DOI":"10.1158\/0008-5472.CAN-05-3296","article-title":"BRCA1 DNA-binding activity is stimulated by BARD1","volume":"66","author":"Simons","year":"2006","journal-title":"Cancer Res."},{"key":"10.1016\/j.mcpro.2025.101034_bib60","doi-asserted-by":"crossref","first-page":"284","DOI":"10.1038\/s41580-020-0218-z","article-title":"The antitumorigenic roles of BRCA1-BARD1 in DNA repair and replication","volume":"21","author":"Tarsounas","year":"2020","journal-title":"Nat. Rev. Mol. Cell Biol."},{"key":"10.1016\/j.mcpro.2025.101034_bib61","doi-asserted-by":"crossref","first-page":"679","DOI":"10.1038\/leu.2010.6","article-title":"gammaH2AX: a sensitive molecular marker of DNA damage and repair","volume":"24","author":"Mah","year":"2010","journal-title":"Leukemia"},{"key":"10.1016\/j.mcpro.2025.101034_bib62","doi-asserted-by":"crossref","DOI":"10.1016\/j.celrep.2024.114603","article-title":"ADP-ribosylome analysis reveals homogeneous DNA-damage-induced serine ADP-ribosylation across wild-type and BRCA-mutant breast cancer cell lines","volume":"43","author":"Anagho","year":"2024","journal-title":"Cell Rep."},{"key":"10.1016\/j.mcpro.2025.101034_bib63","doi-asserted-by":"crossref","first-page":"5588","DOI":"10.1158\/0008-5472.CAN-12-2753","article-title":"Trapping of PARP1 and PARP2 by clinical PARP inhibitors","volume":"72","author":"Murai","year":"2012","journal-title":"Cancer Res."},{"key":"10.1016\/j.mcpro.2025.101034_bib64","doi-asserted-by":"crossref","first-page":"1116","DOI":"10.1038\/nature06633","article-title":"Secondary mutations as a mechanism of cisplatin resistance in BRCA2-mutated cancers","volume":"451","author":"Sakai","year":"2008","journal-title":"Nature"},{"key":"10.1016\/j.mcpro.2025.101034_bib65","doi-asserted-by":"crossref","first-page":"31941","DOI":"10.1074\/jbc.272.51.31941","article-title":"RAD51 interacts with the evolutionarily conserved BRC motifs in the human breast cancer susceptibility gene brca2","volume":"272","author":"Wong","year":"1997","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.mcpro.2025.101034_bib66","doi-asserted-by":"crossref","first-page":"5287","DOI":"10.1073\/pnas.95.9.5287","article-title":"The BRC repeats in BRCA2 are critical for RAD51 binding and resistance to methyl methanesulfonate treatment","volume":"95","author":"Chen","year":"1998","journal-title":"Proc. Natl. Acad. Sci. U. S. A."},{"key":"10.1016\/j.mcpro.2025.101034_bib67","first-page":"1997","article-title":"ERK\/MAPK signalling pathway and tumorigenesis","volume":"19","author":"Guo","year":"2020","journal-title":"Exp. Ther. Med."},{"key":"10.1016\/j.mcpro.2025.101034_bib68","doi-asserted-by":"crossref","first-page":"657","DOI":"10.1007\/s10585-007-9119-1","article-title":"Rho GTPases: functions and association with cancer","volume":"24","author":"Ellenbroek","year":"2007","journal-title":"Clin. Exp. Metastasis"},{"key":"10.1016\/j.mcpro.2025.101034_bib69","doi-asserted-by":"crossref","first-page":"107","DOI":"10.1186\/s12943-020-01227-0","article-title":"PARP inhibitor resistance: the underlying mechanisms and clinical implications","volume":"19","author":"Li","year":"2020","journal-title":"Mol. Cancer"},{"key":"10.1016\/j.mcpro.2025.101034_bib70","doi-asserted-by":"crossref","first-page":"106","DOI":"10.1016\/j.ccr.2012.05.015","article-title":"A distinct replication fork protection pathway connects Fanconi anemia tumor suppressors to RAD51-BRCA1\/2","volume":"22","author":"Schlacher","year":"2012","journal-title":"Cancer Cell"},{"key":"10.1016\/j.mcpro.2025.101034_bib71","doi-asserted-by":"crossref","first-page":"254","DOI":"10.1101\/gad.335109.119","article-title":"Interplay between compartmentalized NAD(+) synthesis and consumption: a focus on the PARP family","volume":"34","author":"Cohen","year":"2020","journal-title":"Genes Dev."},{"key":"10.1016\/j.mcpro.2025.101034_bib72","doi-asserted-by":"crossref","first-page":"50754","DOI":"10.1074\/jbc.M408388200","article-title":"The NAD biosynthesis pathway mediated by nicotinamide phosphoribosyltransferase regulates Sir2 activity in mammalian cells","volume":"279","author":"Revollo","year":"2004","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.mcpro.2025.101034_bib73","doi-asserted-by":"crossref","first-page":"1208","DOI":"10.1126\/science.aac4854","article-title":"NAD(+) in aging, metabolism, and neurodegeneration","volume":"350","author":"Verdin","year":"2015","journal-title":"Science"},{"key":"10.1016\/j.mcpro.2025.101034_bib74","doi-asserted-by":"crossref","first-page":"36334","DOI":"10.1074\/jbc.M508660200","article-title":"Subcellular compartmentation and differential catalytic properties of the three human nicotinamide mononucleotide adenylyltransferase isoforms","volume":"280","author":"Berger","year":"2005","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.mcpro.2025.101034_bib75","doi-asserted-by":"crossref","DOI":"10.1126\/science.aan5780","article-title":"Metabolic regulation of transcription through compartmentalized NAD(+) biosynthesis","volume":"360","author":"Ryu","year":"2018","journal-title":"Science"},{"key":"10.1016\/j.mcpro.2025.101034_bib76","doi-asserted-by":"crossref","first-page":"18868","DOI":"10.1074\/jbc.M110.107631","article-title":"Isoform-specific targeting and interaction domains in human nicotinamide mononucleotide adenylyltransferases","volume":"285","author":"Lau","year":"2010","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.mcpro.2025.101034_bib77","doi-asserted-by":"crossref","first-page":"2493","DOI":"10.1016\/j.celrep.2018.07.083","article-title":"Systems-wide analysis of serine ADP-ribosylation reveals widespread occurrence and site-specific overlap with phosphorylation","volume":"24","author":"Larsen","year":"2018","journal-title":"Cell Rep."},{"key":"10.1016\/j.mcpro.2025.101034_bib78","doi-asserted-by":"crossref","first-page":"1","DOI":"10.7554\/eLife.34334","article-title":"Serine is the major residue for ADP-ribosylation upon DNA damage","volume":"7","author":"Palazzo","year":"2018","journal-title":"eLife"},{"key":"10.1016\/j.mcpro.2025.101034_bib79","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1038\/nmeth705","article-title":"Automated approach for quantitative analysis of complex peptide mixtures from tandem mass spectra","volume":"1","author":"Venable","year":"2004","journal-title":"Nat. Methods"},{"key":"10.1016\/j.mcpro.2025.101034_bib80","doi-asserted-by":"crossref","DOI":"10.1002\/pmic.202200011","article-title":"Recent advances of data-independent acquisition mass spectrometry-based proteomics","volume":"23","author":"Guo","year":"2023","journal-title":"Proteomics"},{"key":"10.1016\/j.mcpro.2025.101034_bib81","doi-asserted-by":"crossref","first-page":"271","DOI":"10.3892\/ijmm.2017.3036","article-title":"The crucial role of protein phosphorylation in cell signaling and its use as targeted therapy","volume":"40","author":"Ardito","year":"2017","journal-title":"Int. J. Mol. Med."},{"key":"10.1016\/j.mcpro.2025.101034_bib82","doi-asserted-by":"crossref","first-page":"286","DOI":"10.1016\/j.tibs.2005.04.013","article-title":"Protein phosphorylation in signaling--50 years and counting","volume":"30","author":"Pawson","year":"2005","journal-title":"Trends Biochem. Sci."},{"key":"10.1016\/j.mcpro.2025.101034_bib83","doi-asserted-by":"crossref","first-page":"952","DOI":"10.1038\/nature01445","article-title":"MDC1 is required for the intra-S-phase DNA damage checkpoint","volume":"421","author":"Goldberg","year":"2003","journal-title":"Nature"},{"key":"10.1016\/j.mcpro.2025.101034_bib84","doi-asserted-by":"crossref","first-page":"961","DOI":"10.1038\/nature01446","article-title":"MDC1 is a mediator of the mammalian DNA damage checkpoint","volume":"421","author":"Stewart","year":"2003","journal-title":"Nature"},{"key":"10.1016\/j.mcpro.2025.101034_bib85","doi-asserted-by":"crossref","first-page":"46359","DOI":"10.1074\/jbc.C400375200","article-title":"MDC1 regulates DNA-PK autophosphorylation in response to DNA damage","volume":"279","author":"Lou","year":"2004","journal-title":"J. Biol. Chem."},{"key":"10.1016\/j.mcpro.2025.101034_bib86","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1016\/j.dnarep.2015.03.007","article-title":"Cell cycle regulation of human DNA repair and chromatin remodeling genes","volume":"30","author":"Mjelle","year":"2015","journal-title":"DNA Repair (Amst)"},{"key":"10.1016\/j.mcpro.2025.101034_bib87","doi-asserted-by":"crossref","DOI":"10.3390\/genes12101541","article-title":"BAZ1B the protean protein","volume":"12","author":"Sharif","year":"2021","journal-title":"Genes (Basel)"},{"key":"10.1016\/j.mcpro.2025.101034_bib88","doi-asserted-by":"crossref","DOI":"10.1016\/j.dnarep.2022.103371","article-title":"BCLAF1, a functional partner of BACH1, participates in DNA damage response","volume":"118","author":"Jiang","year":"2022","journal-title":"DNA Repair (Amst)"},{"key":"10.1016\/j.mcpro.2025.101034_bib89","doi-asserted-by":"crossref","first-page":"2488","DOI":"10.1016\/j.celrep.2016.05.031","article-title":"FANCD2 maintains fork stability in BRCA1\/2-deficient tumors and promotes alternative end-joining DNA repair","volume":"15","author":"Kais","year":"2016","journal-title":"Cell Rep."},{"key":"10.1016\/j.mcpro.2025.101034_bib90","first-page":"5829","article-title":"Downregulated SIRT6 and upregulated NMNAT2 are associated with the presence, depth and stage of colorectal cancer","volume":"16","author":"Qi","year":"2018","journal-title":"Oncol. Lett."},{"key":"10.1016\/j.mcpro.2025.101034_bib91","doi-asserted-by":"crossref","first-page":"535","DOI":"10.1016\/j.cell.2016.03.014","article-title":"On the dependency of cellular protein levels on mRNA abundance","volume":"165","author":"Liu","year":"2016","journal-title":"Cell"},{"key":"10.1016\/j.mcpro.2025.101034_bib92","doi-asserted-by":"crossref","DOI":"10.1038\/srep10775","article-title":"Relationship between differentially expressed mRNA and mRNA-protein correlations in a xenograft model system","volume":"5","author":"Koussounadis","year":"2015","journal-title":"Sci. Rep."},{"key":"10.1016\/j.mcpro.2025.101034_bib93","doi-asserted-by":"crossref","first-page":"630","DOI":"10.1111\/febs.13150","article-title":"BRCA1, a 'complex' protein involved in the maintenance of genomic stability","volume":"282","author":"Savage","year":"2015","journal-title":"FEBS J."},{"key":"10.1016\/j.mcpro.2025.101034_bib94","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/0167-4889(89)90234-6","article-title":"Hydrogen peroxide insult in cultured mammalian cells: relationships between DNA single-strand breakage, poly(ADP-ribose) metabolism and cell killing","volume":"1014","author":"Cantoni","year":"1989","journal-title":"Biochim. Biophys. Acta"},{"key":"10.1016\/j.mcpro.2025.101034_bib95","doi-asserted-by":"crossref","first-page":"D543","DOI":"10.1093\/nar\/gkab1038","article-title":"The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences","volume":"50","author":"Perez-Riverol","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.mcpro.2025.101034_bib96","doi-asserted-by":"crossref","first-page":"D640","DOI":"10.1093\/nar\/gkad1045","article-title":"MetaboLights: open data repository for metabolomics","volume":"52","author":"Yurekten","year":"2024","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.mcpro.2025.101034_bib97","doi-asserted-by":"crossref","first-page":"598","DOI":"10.1038\/nature03404","article-title":"CDK-dependent phosphorylation of BRCA2 as a regulatory mechanism for recombinational repair","volume":"434","author":"Esashi","year":"2005","journal-title":"Nature"},{"key":"10.1016\/j.mcpro.2025.101034_bib98","doi-asserted-by":"crossref","first-page":"475","DOI":"10.1038\/nsmb1251","article-title":"Interaction with the BRCA2 C terminus protects RAD51-DNA filaments from disassembly by BRC repeats","volume":"14","author":"Davies","year":"2007","journal-title":"Nat. Struct. Mol. Biol."}],"container-title":["Molecular & Cellular Proteomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1535947625001331?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S1535947625001331?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,11,7]],"date-time":"2025-11-07T21:08:26Z","timestamp":1762549706000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S1535947625001331"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,8]]},"references-count":98,"journal-issue":{"issue":"8","published-print":{"date-parts":[[2025,8]]}},"alternative-id":["S1535947625001331"],"URL":"https:\/\/doi.org\/10.1016\/j.mcpro.2025.101034","relation":{},"ISSN":["1535-9476"],"issn-type":[{"value":"1535-9476","type":"print"}],"subject":[],"published":{"date-parts":[[2025,8]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Multi-omics Characterization of Acquired Olaparib Resistance in BRCA1 and BRCA2 Mutant Breast Cancer Cell Lines","name":"articletitle","label":"Article Title"},{"value":"Molecular & Cellular Proteomics","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.mcpro.2025.101034","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2025 The Authors. Published by Elsevier Inc on behalf of American Society for Biochemistry and Molecular Biology\u00e9","name":"copyright","label":"Copyright"}],"article-number":"101034"}}