I am a predoctoral fellow at the National Cancer Institute (NCI) Center for Cancer Research (CCR) working in the Cancer Data Science Laboratory (CDSL) under supervision of Dr. Cenk Sahinalp. I am also a third-year Ph.D. student studying Computer Science at the Indiana University Bloomington (IU). My main research focus is on Tumor Heterogeneity and Cancer Evolution. I completed my Master’s thesis at the Sharif University of Technology where I worked on learning of Alternative Splicing problem, supervised by Dr. Abolfazl Motahari and Dr. Hamid Rabiee. I received my Bachelor’s degree from Amirkabir University of Technology (Tehran Polytechnic) in Iran.
Office: 2-6300, Building 10, National Institutes of Health (NIH)
Email: frashidi AT iu DOT edu
Publications
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PhISCS-BnB: A Fast Branch and Bound Algorithm for the Perfect Tumor Phylogeny Reconstruction Problem bioRxiv PDF Code |
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PhISCS: a combinatorial approach for subperfect tumor phylogeny reconstruction via integrative use of single-cell and bulk sequencing data Genome Research PDF Supplementary Code |
Projects
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PhISCS-BnB A fast tool for reconstructing the perfect tumor phylogeny using single-cell data via branch and bound algorithm Code Star Fork |
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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 Star Fork |
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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 |