Literature DB >> 34072237

Multi-Omics Model Applied to Cancer Genetics.

Francesco Pettini1, Anna Visibelli2, Vittoria Cicaloni3, Daniele Iovinelli2, Ottavia Spiga2.   

Abstract

In this review, we focus on bioinformatic oncology as an integrative discipline that incorporates knowledge from the mathematical, physical, and computational fields to further the biomedical understanding of cancer. Before providing a deeper insight into the bioinformatics approach and utilities involved in oncology, we must understand what is a system biology framework and the genetic connection, because of the high heterogenicity of the backgrounds of people approaching precision medicine. In fact, it is essential to providing general theoretical information on genomics, epigenomics, and transcriptomics to understand the phases of multi-omics approach. We consider how to create a multi-omics model. In the last section, we describe the new frontiers and future perspectives of this field.

Entities:  

Keywords:  artificial intelligence; cancer disease; computational oncology; data analysis; machine learning models; omics tools; precision medicine

Year:  2021        PMID: 34072237     DOI: 10.3390/ijms22115751

Source DB:  PubMed          Journal:  Int J Mol Sci        ISSN: 1422-0067            Impact factor:   5.923


  108 in total

1.  Epigenetic crosstalk.

Authors:  I Ben-Porath; H Cedar
Journal:  Mol Cell       Date:  2001-11       Impact factor: 17.970

Review 2.  MicroRNAs in B-cell lymphomas: how a complex biology gets more complex.

Authors:  K Musilova; M Mraz
Journal:  Leukemia       Date:  2014-12-26       Impact factor: 11.528

Review 3.  Orchestrating high-throughput genomic analysis with Bioconductor.

Authors:  Wolfgang Huber; Vincent J Carey; Robert Gentleman; Simon Anders; Marc Carlson; Benilton S Carvalho; Hector Corrada Bravo; Sean Davis; Laurent Gatto; Thomas Girke; Raphael Gottardo; Florian Hahne; Kasper D Hansen; Rafael A Irizarry; Michael Lawrence; Michael I Love; James MacDonald; Valerie Obenchain; Andrzej K Oleś; Hervé Pagès; Alejandro Reyes; Paul Shannon; Gordon K Smyth; Dan Tenenbaum; Levi Waldron; Martin Morgan
Journal:  Nat Methods       Date:  2015-02       Impact factor: 28.547

4.  Mass-spectrometry-based draft of the human proteome.

Authors:  Mathias Wilhelm; Judith Schlegl; Hannes Hahne; Amin Moghaddas Gholami; Marcus Lieberenz; Mikhail M Savitski; Emanuel Ziegler; Lars Butzmann; Siegfried Gessulat; Harald Marx; Toby Mathieson; Simone Lemeer; Karsten Schnatbaum; Ulf Reimer; Holger Wenschuh; Martin Mollenhauer; Julia Slotta-Huspenina; Joos-Hendrik Boese; Marcus Bantscheff; Anja Gerstmair; Franz Faerber; Bernhard Kuster
Journal:  Nature       Date:  2014-05-29       Impact factor: 49.962

5.  omicsPrint: detection of data linkage errors in multiple omics studies.

Authors:  Maarten van Iterson; Davy Cats; Paul Hop; Bastiaan T Heijmans
Journal:  Bioinformatics       Date:  2018-06-15       Impact factor: 6.937

Review 6.  Applications of Metabolomics in Cancer Studies.

Authors:  Emily Grace Armitage; Michal Ciborowski
Journal:  Adv Exp Med Biol       Date:  2017       Impact factor: 2.622

7.  CNAmet: an R package for integrating copy number, methylation and expression data.

Authors:  Riku Louhimo; Sampsa Hautaniemi
Journal:  Bioinformatics       Date:  2011-01-12       Impact factor: 6.937

8.  Fast and accurate short read alignment with Burrows-Wheeler transform.

Authors:  Heng Li; Richard Durbin
Journal:  Bioinformatics       Date:  2009-05-18       Impact factor: 6.937

9.  Mutational heterogeneity in cancer and the search for new cancer-associated genes.

Authors:  Michael S Lawrence; Petar Stojanov; Paz Polak; Gregory V Kryukov; Kristian Cibulskis; Andrey Sivachenko; Scott L Carter; Chip Stewart; Craig H Mermel; Steven A Roberts; Adam Kiezun; Peter S Hammerman; Aaron McKenna; Yotam Drier; Lihua Zou; Alex H Ramos; Trevor J Pugh; Nicolas Stransky; Elena Helman; Jaegil Kim; Carrie Sougnez; Lauren Ambrogio; Elizabeth Nickerson; Erica Shefler; Maria L Cortés; Daniel Auclair; Gordon Saksena; Douglas Voet; Michael Noble; Daniel DiCara; Pei Lin; Lee Lichtenstein; David I Heiman; Timothy Fennell; Marcin Imielinski; Bryan Hernandez; Eran Hodis; Sylvan Baca; Austin M Dulak; Jens Lohr; Dan-Avi Landau; Catherine J Wu; Jorge Melendez-Zajgla; Alfredo Hidalgo-Miranda; Amnon Koren; Steven A McCarroll; Jaume Mora; Brian Crompton; Robert Onofrio; Melissa Parkin; Wendy Winckler; Kristin Ardlie; Stacey B Gabriel; Charles W M Roberts; Jaclyn A Biegel; Kimberly Stegmaier; Adam J Bass; Levi A Garraway; Matthew Meyerson; Todd R Golub; Dmitry A Gordenin; Shamil Sunyaev; Eric S Lander; Gad Getz
Journal:  Nature       Date:  2013-06-16       Impact factor: 49.962

10.  DNA methylation markers panel can improve prediction of response to neoadjuvant chemotherapy in luminal B breast cancer.

Authors:  Vladimir O Sigin; Alexey I Kalinkin; Ekaterina B Kuznetsova; Olga A Simonova; Galina G Chesnokova; Nikolai V Litviakov; Elena M Slonimskaya; Matvey M Tsyganov; Marina K Ibragimova; Ilya V Volodin; Ilya I Vinogradov; Maksim I Vinogradov; Igor Y Vinogradov; Sergey I Kutsev; Vladimir V Strelnikov; Dmitry V Zaletaev; Alexander S Tanas
Journal:  Sci Rep       Date:  2020-06-08       Impact factor: 4.379

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  5 in total

Review 1.  The Result of Vitamin C Treatment of Patients with Cancer: Conditions Influencing the Effectiveness.

Authors:  János Hunyady
Journal:  Int J Mol Sci       Date:  2022-04-15       Impact factor: 6.208

Review 2.  Proteomic Profiling and Biomarker Discovery in Colorectal Liver Metastases.

Authors:  Geoffrey Yuet Mun Wong; Connie Diakos; Thomas J Hugh; Mark P Molloy
Journal:  Int J Mol Sci       Date:  2022-05-29       Impact factor: 6.208

Review 3.  From Omics to Multi-Omics Approaches for In-Depth Analysis of the Molecular Mechanisms of Prostate Cancer.

Authors:  Ekaterina Nevedomskaya; Bernard Haendler
Journal:  Int J Mol Sci       Date:  2022-06-03       Impact factor: 6.208

Review 4.  Application of Multi-Omics Approach in Sarcomas: A Tool for Studying Mechanism, Biomarkers, and Therapeutic Targets.

Authors:  Zijian Zou; Wei Sun; Yu Xu; Wanlin Liu; Jingqin Zhong; Xinyi Lin; Yong Chen
Journal:  Front Oncol       Date:  2022-07-08       Impact factor: 5.738

Review 5.  The Role of Biomarkers in the Management of Colorectal Liver Metastases.

Authors:  Daniel Brock Hewitt; Zachary J Brown; Timothy M Pawlik
Journal:  Cancers (Basel)       Date:  2022-09-22       Impact factor: 6.575

  5 in total

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