Barış Ekim
Postdoctoral Associate
New Haven, Connecticut, United States
Summary
👤
Senior🎓
Top SchoolBarış Ekim is a computational biologist and postdoctoral associate with a decade of experience at the intersection of algorithms and genomics, currently based at Yale after PhD work at MIT's Computation and Biology Group. His research spans genome assembly, pangenomics, metagenomics, structural variant calling, complexity theory, and genomic privacy, blending theoretical tools like universal hitting sets with practical sequence-analysis pipelines. He has collaborated across institutions including the Broad Institute, CSAIL, and international labs, contributing to entropy-based clustering and novel algorithmic libraries tied to a new programming language effort. Comfortable moving between deep theory and applied bioinformatics, he has repeatedly translated mathematical insights into genomic software and datasets. Originally from Istanbul, he brings a multidisciplinary background in computer science, molecular biology and mathematics to tackle large-scale genomic problems.
11 years of coding experience
10 years of employment as a software developer
Doctor of Philosophy (PhD) Computer Science, Doctor of Philosophy (PhD) Computer Science at Massachusetts Institute of Technology
Turkish, English, French, Hebrew
Github Skills (21)
minimizer10
genome-assembly10
genome-analysis9
computational-biology8
genomics8
algorithms8
bioinformatics7
dna-sequences7
genome6
python5
programming-language5
graph4
fastq3
rust3
compiler3
Programming languages (8)
Github contributions (5)
ekimb/ekimb.github.io
Mar 2016 - Feb 2018
Contributions:259 pushes, 1 branch in 1 year 11 months
ekimb/mapquik
Jul 2021 - Dec 2022
Efficient low-divergence mapping of long reads in minimizer space
Contributions:128 commits, 7 PRs, 15 pushes in 1 year 6 months
minimizer
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