Farid Rashidi

Farid Rashidi


I am a predoctoral fellow at the National Cancer Institute (NCI) working in Cancer Data Science Laboratory (CDSL) under supervision of Dr. Cenk Sahinalp. I am also a Ph.D. student studying Computer Science at the Indiana University Bloomington (IUB) since 2017. My main research focus is on Tumor Heterogeneity and Cancer Evolution using Single-cell sequencing data. I completed my Master’s thesis at the Sharif University of Technology where I worked on learning of Alternative Splicing problem, jointly supervised by Dr. Abolfazl Motahari and Dr. Hamid Rabiee. I received my Bachelor’s degree from Amirkabir University of Technology (Tehran Polytechnic) in Iran.



Publications

Studying the history of tumor evolution from single-cell sequencing data by exploring the space of binary matrices

bioRxiv Full text

PhISCS-BnB: a fast branch and bound algorithm for the perfect tumor phylogeny reconstruction problem

Bioinformatics ISMB 2020 Proceedings Full text Supplementary Code Presentation

PhISCS: a combinatorial approach for subperfect tumor phylogeny reconstruction via integrative use of single-cell and bulk sequencing data

Genome Research Full text Supplementary Code Presentation



Software

PhISCS-BnB: a fast tool for reconstructing the perfect tumor phylogeny using single-cell data via branch and bound algorithm

Code Publication Star Fork

PhISCS: a tool for sub-perfect tumor phylogeny reconstruction via integrative use of single-cell and bulk sequencing data, with later being an optional

Code Publication Star Fork

Kaggle Solutions: a searchable list of almost all available solutions and ideas shared by top performers in the past Kaggle competitions

Webpage Code Star Fork