Machine learning and multi-omics data in chronic lymphocytic leukemia: the future of precision medicine?

被引:6
作者
Tsagiopoulou, Maria [1 ]
Gut, Ivo G. [1 ,2 ]
机构
[1] Ctr Nacl Anal Genom CNAG, Barcelona, Spain
[2] Univ Barcelona UB, Barcelona, Spain
关键词
machine Learning; omics; multi-omics analysis; precision medicine; chronic lymphocytic leukemia (CLL); bioinformatics; NGS -next generation sequencing; SUBGROUPS; FORM;
D O I
10.3389/fgene.2023.1304661
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Chronic lymphocytic leukemia is a complex and heterogeneous hematological malignancy. The advance of high-throughput multi-omics technologies has significantly influenced chronic lymphocytic leukemia research and paved the way for precision medicine approaches. In this review, we explore the role of machine learning in the analysis of multi-omics data in this hematological malignancy. We discuss recent literature on different machine learning models applied to single omic studies in chronic lymphocytic leukemia, with a special focus on the potential contributions to precision medicine. Finally, we highlight the recently published machine learning applications in multi-omics data in this area of research as well as their potential and limitations.
引用
收藏
页数:7
相关论文
共 56 条
[1]   Application of an Artificial Neural Network in the Diagnosis of Chronic Lymphocytic Leukemia [J].
Aghamaleki, Fateme Shaabanpour ;
Mollashahi, Behrouz ;
Nosrati, Mokhtar ;
Moradi, Afshin ;
Sheikhpour, Mojgan ;
Movafagh, Abolfazl .
CUREUS JOURNAL OF MEDICAL SCIENCE, 2019, 11 (02)
[2]   Multi-Omics Factor Analysis-a framework for unsupervised integration of multi-omics data sets [J].
Argelaguet, Ricard ;
Velten, Britta ;
Arnol, Damien ;
Dietrich, Sascha ;
Zenz, Thorsten ;
Marioni, John C. ;
Buettner, Florian ;
Huber, Wolfgang ;
Stegle, Oliver .
MOLECULAR SYSTEMS BIOLOGY, 2018, 14 (06)
[3]   Machine Learning: A New Prospect in Multi-Omics Data Analysis of Cancer [J].
Arjmand, Babak ;
Hamidpour, Shayesteh Kokabi ;
Tayanloo-Beik, Akram ;
Goodarzi, Parisa ;
Aghayan, Hamid Reza ;
Adibi, Hossein ;
Larijani, Bagher .
FRONTIERS IN GENETICS, 2022, 13
[4]   Prognostic indices in chronic lymphocytic leukaemia: where do we stand how do we proceed? [J].
Baliakas, P. ;
Mattsson, M. ;
Stamatopoulos, K. ;
Rosenquist, R. .
JOURNAL OF INTERNAL MEDICINE, 2016, 279 (04) :347-357
[5]   Cancer cell states recur across tumor types and form specific interactions with the tumor microenvironment [J].
Barkley, Dalia ;
Moncada, Reuben ;
Pour, Maayan ;
Liberman, Deborah A. ;
Dryg, Ian ;
Werba, Gregor ;
Wang, Wei ;
Baron, Maayan ;
Rao, Anjali ;
Xia, Bo ;
Franca, Gustavo S. ;
Weil, Alejandro ;
Delair, Deborah F. ;
Hajdu, Cristina ;
Lund, Amanda W. ;
Osman, Iman ;
Yanai, Itai .
NATURE GENETICS, 2022, 54 (08) :1192-+
[6]   The reference epigenome and regulatory chromatin landscape of chronic lymphocytic leukemia [J].
Beekman, Renee ;
Chapaprieta, Vicente ;
Russinol, Nuria ;
Vilarrasa-Blasi, Roser ;
Verdaguer-Dot, Nuria ;
Martens, Joost H. A. ;
Duran-Ferrer, Marti ;
Kulis, Marta ;
Serra, Francois ;
Javierre, Biola M. ;
Wingett, Steven W. ;
Clot, Guillem ;
Queiros, Ana C. ;
Castellano, Giancarlo ;
Blanc, Julie ;
Gut, Marta ;
Merkel, Angelika ;
Heath, Simon ;
Vlasova, Anna ;
Ullrich, Sebastian ;
Palumbo, Emilio ;
Enjuanes, Anna ;
Martin-Garcia, David ;
Bea, Silvia ;
Pinyol, Magda ;
Aymerich, Marta ;
Royo, Romina ;
Puiggros, Montserrat ;
Torrents, David ;
Datta, Avik ;
Lowy, Ernesto ;
Kostadima, Myrto ;
Roller, Masa ;
Clarke, Laura ;
Flicek, Paul ;
Agirre, Xabier ;
Prosper, Felipe ;
Baumann, Tycho ;
Delgado, Julio ;
Lopez-Guillermo, Armando ;
Fraser, Peter ;
Yaspo, Marie-Laure ;
Guigo, Roderic ;
Siebert, Reiner ;
Marti-Renom, Marc A. ;
Puente, Xose S. ;
Lopez-Otin, Carlos ;
Gut, Ivo ;
Stunnenberg, Hendrik G. ;
Campo, Elias .
NATURE MEDICINE, 2018, 24 (06) :868-+
[7]   Prognostic impact of epigenetic classification in chronic lymphocytic leukemia: The case of subset #2 [J].
Bhoi, Sujata ;
Ljungstrom, Viktor ;
Baliakas, Panagiotis ;
Mattsson, Mattias ;
Smedby, Karin E. ;
Juliusson, Gunnar ;
Rosenquist, Richard ;
Mansouri, Larry .
EPIGENETICS, 2016, 11 (06) :449-455
[8]  
BigML, 2011, Bigml USA
[9]   Random forests [J].
Breiman, L .
MACHINE LEARNING, 2001, 45 (01) :5-32
[10]   Targeting BTK with Ibrutinib in Relapsed Chronic Lymphocytic Leukemia [J].
Byrd, John C. ;
Furman, Richard R. ;
Coutre, Steven E. ;
Flinn, Ian W. ;
Burger, Jan A. ;
Blum, Kristie A. ;
Grant, Barbara ;
Sharman, Jeff P. ;
Coleman, Morton ;
Wierda, William G. ;
Jones, Jeffrey A. ;
Zhao, Weiqiang ;
Heerema, Nyla A. ;
Johnson, Amy J. ;
Sukbuntherng, Juthamas ;
Chang, Betty Y. ;
Clow, Fong ;
Hedrick, Eric ;
Buggy, Joseph J. ;
James, Danelle F. ;
O'Brien, Susan .
NEW ENGLAND JOURNAL OF MEDICINE, 2013, 369 (01) :32-42