BAP1 Loss Predicts Therapeutic Vulnerability in Malignant Peritoneal Mesothelioma

作者: Stanislav Volik , Antonio Hurtado-Coll , Anne Haegert , Ladan Fazli , Robert Shukin

DOI: 10.1101/243477

关键词: MedicineImmune checkpointCancer researchDNA Repair PathwayMalignant Peritoneal MesotheliomaChemotherapyBAP1Precision medicineCancerChromatin remodeling

摘要: Malignant Peritoneal Mesothelioma (PeM) is a rare but frequently fatal cancer that originates from the peritoneal lining of abdomen. Standard treatment PeM limited to cytoreductive surgery and/or chemotherapy, and no effective targeted therapies for yet exist. In search novel therapeutic target candidates in PeM, we performed comprehensive integrative multi-omics analysis 19 treatment-naive tumors. The identified tumors with BAP1 loss form distinct molecular subtype characterized by expression patterns genes involved chromatin remodeling, DNA repair pathway, immune checkpoint receptor activation. This could potentially benefit checkpoint, PARP, or HDAC inhibition therapies. Our findings uncover as trackable prognostic predictive biomarker, refine disease classification. integrated characterization provides foundation developing precision medicine.

参考文章(58)
Lisa A. Levin, Guillermo F. Mendoza, Benjamin M. Grupe, Jennifer P. Gonzalez, Brittany Jellison, Greg Rouse, Andrew R. Thurber, Anders Waren, Biodiversity on the Rocks: Macrofauna Inhabiting Authigenic Carbonate at Costa Rica Methane Seeps. PLOS ONE. ,vol. 10, ,(2015) , 10.1371/JOURNAL.PONE.0131080
Feriyl Bhaijee, Thomas Huebner, Ralph H. Hruban, Laura D. Wood, Nathan Cuka, Drew M. Pardoll, Nickolas Papadopoulos, Kenneth W. Kinzler, Shibin Zhou, Toby C. Cornish, Janis M. Taube, Robert A. Anders, James R. Eshleman, Bert Vogelstein, Luis A. Diaz, Dung T. Le, Jennifer N. Uram, Hao Wang, Bjarne R. Bartlett, Holly Kemberling, Aleksandra D. Eyring, Andrew D. Skora, Brandon S. Luber, Nilofer S. Azad, Dan Laheru, Barbara Biedrzycki, Ross C. Donehower, Atif Zaheer, George A. Fisher, Todd S. Crocenzi, James J. Lee, Steven M. Duffy, Richard M. Goldberg, Albert de la Chapelle, Minori Koshiji, PD-1 Blockade in Tumors with Mismatch-Repair Deficiency The New England Journal of Medicine. ,vol. 372, pp. 2509- 2520 ,(2015) , 10.1056/NEJMOA1500596
Joseph J. Sacco, Jenna Kenyani, Zohra Butt, Rachel Carter, Hui Yi Chew, Liam P. Cheeseman, Sarah Darling, Michael Denny, Sylvie Urbé, Michael J. Clague, Judy M. Coulson, Loss of the deubiquitylase BAP1 alters class I histone deacetylase expression and sensitivity of mesothelioma cells to HDAC inhibitors. Oncotarget. ,vol. 6, pp. 13757- 13771 ,(2015) , 10.18632/ONCOTARGET.3765
Hakan Alakus, Shawn E Yost, Brian Woo, Randall French, Grace Y Lin, Kristen Jepsen, Kelly A Frazer, Andrew M Lowy, Olivier Harismendy, BAP1 mutation is a frequent somatic event in peritoneal malignant mesothelioma. Journal of Translational Medicine. ,vol. 13, pp. 122- 122 ,(2015) , 10.1186/S12967-015-0485-1
K. Wang, M. Li, H. Hakonarson, ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data Nucleic Acids Research. ,vol. 38, ,(2010) , 10.1093/NAR/GKQ603
Aaron M Newman, Chih Long Liu, Michael R Green, Andrew J Gentles, Weiguo Feng, Yue Xu, Chuong D Hoang, Maximilian Diehn, Ash A Alizadeh, Robust enumeration of cell subsets from tissue expression profiles Nature Methods. ,vol. 12, pp. 453- 457 ,(2015) , 10.1038/NMETH.3337
Brandon S. Sheffield, Anna V. Tinker, Yaoqing Shen, Harry Hwang, Hector H. Li-Chang, Erin Pleasance, Carolyn Ch’ng, Amy Lum, Julie Lorette, Yarrow J. McConnell, Sophie Sun, Steven J. M. Jones, Allen M. Gown, David G. Huntsman, David F. Schaeffer, Andrew Churg, Stephen Yip, Janessa Laskin, Marco A. Marra, Personalized Oncogenomics: Clinical Experience with Malignant Peritoneal Mesothelioma Using Whole Genome Sequencing PLOS ONE. ,vol. 10, pp. e0119689- ,(2015) , 10.1371/JOURNAL.PONE.0119689
Matthew Bott, Marie Brevet, Barry S Taylor, Shigeki Shimizu, Tatsuo Ito, Lu Wang, Jenette Creaney, Richard A Lake, Maureen F Zakowski, Boris Reva, Chris Sander, Robert Delsite, Simon Powell, Qin Zhou, Ronglai Shen, Adam Olshen, Valerie Rusch, Marc Ladanyi, The nuclear deubiquitinase BAP1 is commonly inactivated by somatic mutations and 3p21.1 losses in malignant pleural mesothelioma Nature Genetics. ,vol. 43, pp. 668- 672 ,(2011) , 10.1038/NG.855
Andrew McPherson, Fereydoun Hormozdiari, Abdalnasser Zayed, Ryan Giuliany, Gavin Ha, Mark G. F. Sun, Malachi Griffith, Alireza Heravi Moussavi, Janine Senz, Nataliya Melnyk, Marina Pacheco, Marco A. Marra, Martin Hirst, Torsten O. Nielsen, S. Cenk Sahinalp, David Huntsman, Sohrab P. Shah, deFuse: An Algorithm for Gene Fusion Discovery in Tumor RNA-Seq Data PLoS Computational Biology. ,vol. 7, pp. e1001138- ,(2011) , 10.1371/JOURNAL.PCBI.1001138
Luana Calabrò, Aldo Morra, Ester Fonsatti, Ornella Cutaia, Giovanni Amato, Diana Giannarelli, Anna Maria Di Giacomo, Riccardo Danielli, Maresa Altomonte, Luciano Mutti, Michele Maio, Tremelimumab for patients with chemotherapy-resistant advanced malignant mesothelioma: an open-label, single-arm, phase 2 trial Lancet Oncology. ,vol. 14, pp. 1104- 1111 ,(2013) , 10.1016/S1470-2045(13)70381-4