Algorithms in

Algorithms in





at TAU

at TAU

We develop algorithms and tools for analysis of
genomic and systems biology data. Areas include:

Jan 2022: Better long read mapping with syncmers

Read the preprint of David Pellow and Abhinav Dutta broadening the theory of syncmer and applying it to improve the long read mappers minimap and winnowmap.

December 2021: Congrats to Yael

Congratulations to Yael Ben-Ari, who completed her MSc degree! Yael's thesis "Improving the efficiency of de Bruijn graph construction using compact universal hitting sets" is available here.

December 2021: Adaptive minimizer order

Read Dan Flomin and David's new preprint on using adaptive minimizer order to cut the memory size of Gerbil k-mer counter by 30-50%.

November 2011: Domino web server is online.

A new online service enabling network-based active module discovery is now operational. The server, developed by Hagai and Nima, applies the DOMINO algorithm. See the manuscript.

November 2021: A new metagenomic 3-way classifier

Lianrong's manuscript describing a classifier of metagenomic contigs into viral, plasmidic and bacterial is now available in BioRxiv.

October 2021: Nimrod wins excellence award from the Herczeg Institute

Nimrod Rappoport won an excellence award from the Herczeg Institute on Aging for an outstanding doctoral research proposal in the field of aging. Congrats Nimrod!

Oct 2021: Welcome to Ron

We welcome Ron Saad who is joining the group as a Master student. Ron has a BSc from the Technion and is completing his service in the IDF.

September 2021: DOMINO stars in an active module discovery benchmark

A new article by Lazareva et al. benchmarked eight active module identification algorithms on multiple real and randomized biological networks. The authors conclude that Hagai's DOMINO algorithm was the only algorithm that produced more meaningful candidate disease modules on real than on random networks. Congrats Hagai!

August 2021: NEMO stars in a recent cancer subtyping benchmark

A new article by Duan et al. conducted an extensive benchmark on ten algorithms for multi-omic clustering. The study used nine cancers and four omics and conducted multiple common and novel tests. It concluded that the NEMO algorithm developed by Nimrod, as well as SNF, performed well in all criteria, and recommended them for cancer subtyping. Congrats Nimrod!

Aug 2021: Igor Ulitsky wins the Blavatnik Award

Prof. Igor Ulitsky (Weizmann Institute) was selected as the 2020 Life Sciences Laureate of the Blavatnik Awards for Young Scientists in Israel. He received the award in a recent ceremony. Igor did his PhD in Shamir group and is a leader in understanding the non-coding human genome. See here for a video on his award. Congratulations Igor!

Prof. Ron Shamir

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