I’m a postdoctoral researcher at Seoul National University, where I work with Martin Steinegger. My expertise includes bioinformatics, metagenomics, protein structure prediction and machine learning. I’m a developer and maintainer of many open-source tools like ColabFold, MMseqs2 and Foldseek. I hold a PhD from the University of Göttingen and the MPI-NAT, where I worked with Johannes Söding.
Education
Ph.D. (Dr. rer. nat, summa cum laude)
M.Sc. in Computer Science
B.Sc. in Bioinformatics
Projects
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ColabFold accelerates protein structure and complex prediction by utilizing the fast homology search of MMseqs2 and the advanced folding model of AlphaFold2.
Foldseek is a free open-source software and webserver that enables fast and sensitive comparisons of large sets of publicly available protein structures, with sensitivities similar to state-of-the-art structural aligners but four to five orders of magnitude faster.
MMseqs2 is open-source software for protein and nucleotide sequence search and clustering, offering profile searches with PSI-BLAST-like sensitivity at 400x the speed, fast metagenomic contig taxonomic labeling, and it includes a desktop and server app.
Plass is an open-source assembler that can recover 2-10 times more protein sequences from complex metagenomes, and has been used to assemble some of the largest free collections of protein sequences.
Publications
(2023).
Beyond sequence similarity: cross-phyla protein annotation by structural prediction and alignment.
bioRxiv.
(2022).
ColabFold: making protein folding accessible to all.
Nature Methods.
(2022).
Foldseek: fast and accurate protein structure search.
bioRxiv.
(2021).
SpacePHARER: sensitive identification of phages from CRISPR spacers in prokaryotic hosts.
Bioinformatics.
(2021).
Fast and sensitive taxonomic assignment to metagenomic contigs.
Bioinformatics.
Contact
- milot@mirdita.de
- 1 Gwanak-ro, Gwanak-gu, Seoul, 08826
- Enter Building 502 and take the elevator to office 407
- Mastodon