title: Prioritization of anticancer drugs against a cancer using genomic features of cancer cells: A step towards personalized medicine.
abstract: In this study, we investigated drug profile of 24 anticancer drugs tested against a large number of cell lines in order to understand the relation between drug resistance and altered genomic features of a cancer cell line. We detected frequent mutations, high expression and high copy number variations of certain genes in both drug resistant cell lines and sensitive cell lines. It was observed that a few drugs, like Panobinostat, are effective against almost all types of cell lines, whereas certain drugs are effective against only a limited type of cell lines. Tissue-specific preference of drugs was also seen where a drug is more effective against cell lines belonging to a specific tissue. Genomic features based models have been developed for each anticancer drug and achieved average correlation between predicted and actual growth inhibition of cell lines in the range of 0.43 to 0.78. We hope, our study will throw light in the field of personalized medicine, particularly in designing patient-specific anticancer drugs. In order to serve the scientific community, a webserver, CancerDP, has been developed for predicting priority/potency of an anticancer drug against a cancer cell line using its genomic features (http://crdd.osdd.net/raghava/cancerdp/).
authors.affiliation: Bioinformatics Centre, CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, India.
authors.forename: Sudheer
authors.initials: S
authors.lastname: Gupta
authors.affiliation: Bioinformatics Centre, CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, India.
authors.forename: Kumardeep
authors.initials: K
authors.lastname: Chaudhary
authors.affiliation: Bioinformatics Centre, CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, India.
authors.forename: Rahul
authors.initials: R
authors.lastname: Kumar
authors.affiliation: Bioinformatics Centre, CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, India.
authors.forename: Ankur
authors.initials: A
authors.lastname: Gautam
authors.affiliation: Bioinformatics Centre, CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, India.
authors.forename: Jagpreet Singh
authors.initials: JS
authors.lastname: Nanda
authors.affiliation: Bioinformatics Centre, CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, India.
authors.forename: Sandeep Kumar
authors.initials: SK
authors.lastname: Dhanda
authors.affiliation: CSIR-Institute of Genomics and Integrative Biology, Mathura Road, New Delhi-110007, India.
authors.forename: Samir Kumar
authors.initials: SK
authors.lastname: Brahmachari
authors.affiliation: Bioinformatics Centre, CSIR-Institute of Microbial Technology, Sector 39A, Chandigarh, India.
authors.forename: Gajendra P S
authors.initials: GP
authors.lastname: Raghava
mesh_terms: D000970:Antineoplastic Agents / Q000494:pharmacology*; D045744:Cell Line, Tumor; D056915:DNA Copy Number Variations; D019008:Drug Resistance, Neoplasm / Q000235:genetics*; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D006877:Hydroxamic Acids / Q000494:pharmacology*; D007211:Indoles / Q000494:pharmacology*; D008957:Models, Genetic; D009363:Neoplasm Proteins / Q000235:genetics*; D009928:Organ Specificity; D000077767:Panobinostat; D057285:Precision Medicine
chemical_list: D000970:Antineoplastic Agents; D006877:Hydroxamic Acids; D007211:Indoles; D009363:Neoplasm Proteins; D000077767:Panobinostat