Elucidating Cancer Subtypes by Using Epigenome and Genome Cross-Talk

Muneeba Jilani; Nurit Haspel

doi:10.1007/978-3-031-64629-4_1

Elucidating Cancer Subtypes by Using Epigenome and Genome Cross-Talk

Muneeba Jilani
, Nurit Haspel

Computer Science

University of Massachusetts Boston

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Abstract

DNA methylation plays a critical role in tumorigenesis and tumor malignancy . The role of this epigenetic phenomena, especially, in the investigation of cancer subtypes remains rather under-explored. In this study, we use sCClust (sparse Canonical Correlation analysis with Clustering), a method that combines high-dimensional omics data using sparse canonical correlation analysis (sCCA), to gene expression and DNA methylation data for prostate cancer to elucidate underlying subtypes. We compare the subtypes with the TCGA taxonomy and evaluate the results using survival analysis. Our findings demonstrate that data integration results in statistically significant subtypes similar to the TCGA subtypes and outperforms existing classification efforts. The significance of this study lies in enhancement in the subtyping of prostate cancer, as well as statistical integration of epigenomic and transcriptomic data.

Original language	English
Title of host publication	Bioinformatics and Biomedical Engineering - 11th International Conference, IWBBIO 2024, Proceedings
Editors	Ignacio Rojas, Francisco Ortuño, Fernando Rojas, Luis Javier Herrera, Olga Valenzuela
Publisher	Springer Science and Business Media Deutschland GmbH
Pages	3-16
Number of pages	14
ISBN (Print)	9783031646287
DOIs	https://doi.org/10.1007/978-3-031-64629-4_1
State	Published - 2024
Event	11th International Work-Conference on Bioinformatics and Biomedical Engineering, IWBBIO 2024 - Gran Canaria, Spain Duration: Jul 15 2024 → Jul 17 2024

Publication series

Name	Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume	14848 LNBI
ISSN (Print)	0302-9743
ISSN (Electronic)	1611-3349

Conference

Conference	11th International Work-Conference on Bioinformatics and Biomedical Engineering, IWBBIO 2024
Country/Territory	Spain
City	Gran Canaria
Period	7/15/24 → 7/17/24

ASJC Scopus Subject Areas

Theoretical Computer Science
General Computer Science

Keywords

Cancer Subtypes
Data Integration
DNA Methylation
Prostate Adenocarcinoma

Access to Document

10.1007/978-3-031-64629-4_1

Cite this

Jilani, M., & Haspel, N. (2024). Elucidating Cancer Subtypes by Using Epigenome and Genome Cross-Talk. In I. Rojas, F. Ortuño, F. Rojas, L. J. Herrera, & O. Valenzuela (Eds.), Bioinformatics and Biomedical Engineering - 11th International Conference, IWBBIO 2024, Proceedings (pp. 3-16). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 14848 LNBI). Springer Science and Business Media Deutschland GmbH. https://doi.org/10.1007/978-3-031-64629-4_1

Elucidating Cancer Subtypes by Using Epigenome and Genome Cross-Talk. / Jilani, Muneeba; Haspel, Nurit.
Bioinformatics and Biomedical Engineering - 11th International Conference, IWBBIO 2024, Proceedings. ed. / Ignacio Rojas; Francisco Ortuño; Fernando Rojas; Luis Javier Herrera; Olga Valenzuela. Springer Science and Business Media Deutschland GmbH, 2024. p. 3-16 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 14848 LNBI).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Jilani, M & Haspel, N 2024, Elucidating Cancer Subtypes by Using Epigenome and Genome Cross-Talk. in I Rojas, F Ortuño, F Rojas, LJ Herrera & O Valenzuela (eds), Bioinformatics and Biomedical Engineering - 11th International Conference, IWBBIO 2024, Proceedings. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 14848 LNBI, Springer Science and Business Media Deutschland GmbH, pp. 3-16, 11th International Work-Conference on Bioinformatics and Biomedical Engineering, IWBBIO 2024, Gran Canaria, Spain, 7/15/24. https://doi.org/10.1007/978-3-031-64629-4_1

Jilani M, Haspel N. Elucidating Cancer Subtypes by Using Epigenome and Genome Cross-Talk. In Rojas I, Ortuño F, Rojas F, Herrera LJ, Valenzuela O, editors, Bioinformatics and Biomedical Engineering - 11th International Conference, IWBBIO 2024, Proceedings. Springer Science and Business Media Deutschland GmbH. 2024. p. 3-16. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). doi: 10.1007/978-3-031-64629-4_1

Jilani, Muneeba ; Haspel, Nurit. / Elucidating Cancer Subtypes by Using Epigenome and Genome Cross-Talk. Bioinformatics and Biomedical Engineering - 11th International Conference, IWBBIO 2024, Proceedings. editor / Ignacio Rojas ; Francisco Ortuño ; Fernando Rojas ; Luis Javier Herrera ; Olga Valenzuela. Springer Science and Business Media Deutschland GmbH, 2024. pp. 3-16 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).

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