Literature DB >> 31342013

Big Data Approaches for Modeling Response and Resistance to Cancer Drugs.

Peng Jiang1, William R Sellers2, X Shirley Liu1.   

Abstract

Despite significant progress in cancer research, current standard-of-care drugs fail to cure many types of cancers. Hence, there is an urgent need to identify better predictive biomarkers and treatment regimes. Conventionally, insights from hypothesis-driven studies are the primary force for cancer biology and therapeutic discoveries. Recently, the rapid growth of big data resources, catalyzed by breakthroughs in high-throughput technologies, has resulted in a paradigm shift in cancer therapeutic research. The combination of computational methods and genomics data has led to several successful clinical applications. In this review, we focus on recent advances in data-driven methods to model anticancer drug efficacy, and we present the challenges and opportunities for data science in cancer therapeutic research.

Entities:  

Keywords:  big data; combination therapy; drug resistance; immunotherapy; precision medicine; response biomarker; toxicity

Year:  2018        PMID: 31342013      PMCID: PMC6655478          DOI: 10.1146/annurev-biodatasci-080917-013350

Source DB:  PubMed          Journal:  Annu Rev Biomed Data Sci        ISSN: 2574-3414


  8 in total

1.  Systematic prediction of drug resistance caused by transporter genes in cancer cells.

Authors:  Yao Shen; Zhipeng Yan
Journal:  Sci Rep       Date:  2021-04-01       Impact factor: 4.379

2.  Systematic investigation of cytokine signaling activity at the tissue and single-cell levels.

Authors:  Peng Jiang; Yu Zhang; Beibei Ru; Yuan Yang; Trang Vu; Rohit Paul; Amer Mirza; Grégoire Altan-Bonnet; Lingrui Liu; Eytan Ruppin; Lalage Wakefield; Kai W Wucherpfennig
Journal:  Nat Methods       Date:  2021-09-30       Impact factor: 28.547

Review 3.  Big data in basic and translational cancer research.

Authors:  Peng Jiang; Sanju Sinha; Kenneth Aldape; Sridhar Hannenhalli; Cenk Sahinalp; Eytan Ruppin
Journal:  Nat Rev Cancer       Date:  2022-09-05       Impact factor: 69.800

4.  Spike-in normalization for single-cell RNA-seq reveals dynamic global transcriptional activity mediating anticancer drug response.

Authors:  Xin Wang; Jane Frederick; Hongbin Wang; Sheng Hui; Vadim Backman; Zhe Ji
Journal:  NAR Genom Bioinform       Date:  2021-06-17

5.  TUGDA: task uncertainty guided domain adaptation for robust generalization of cancer drug response prediction from in vitro to in vivo settings.

Authors:  Rafael Peres da Silva; Chayaporn Suphavilai; Niranjan Nagarajan
Journal:  Bioinformatics       Date:  2021-05-17       Impact factor: 6.937

Review 6.  The promise and challenge of cancer microbiome research.

Authors:  Sumeed Syed Manzoor; Annemiek Doedens; Michael B Burns
Journal:  Genome Biol       Date:  2020-06-02       Impact factor: 13.583

7.  pathCHEMO, a generalizable computational framework uncovers molecular pathways of chemoresistance in lung adenocarcinoma.

Authors:  Nusrat J Epsi; Sukanya Panja; Sharon R Pine; Antonina Mitrofanova
Journal:  Commun Biol       Date:  2019-09-06

8.  Tissue-guided LASSO for prediction of clinical drug response using preclinical samples.

Authors:  Edward W Huang; Ameya Bhope; Jing Lim; Saurabh Sinha; Amin Emad
Journal:  PLoS Comput Biol       Date:  2020-01-22       Impact factor: 4.475

  8 in total

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