Next “Bioinformatic Pizza Seminar” will be held on June 12, 2019 in the Mada’im B seminar room.
The Bioinformatic Pizza
Sagi’s paper: “Greedy Partition Distance under Stochastic Models – Analytic Results״ . is accepted to ISBRA 2019.
ISBRA 2019
CGSI 2019 @UCLA
Sagi will give a talk at the Annual Meeting of the Israeli Mathematical Union (IMU) at Hebrew U.
The Israeli Mathematical Union Meeting, 2019
“Synteny Footprints Provide Clearer Phylogenetic Signal than Sequence Data for Prokayotic Classification”. Accepted to Molecular Phylogenetics and Evolution.
Gur and Sagi’s paper is accepted at Molecular Phylogenetics and Evolution.
Our colleague, partner, and mostly friend, Eliezer Eskin from UCLA, was elected as the 2019 International Society for Computational Biology (ISCB) fellow. This is in large part, thanks to his innovative and pioneering initiative, Computational Genomics Summer Institute(CGSI) that will be given this summer for the fourth time.
ISCB Congratulates the 2019 Class of Fellows!
February 2019
Sagi gave the (3rd time) workshop Introduction to Phylogenetics at UCLA
February 2019
February 2019
February 2017
July 2016
May 2016
January 2016
Sagi is going for a sabbatical at UCLA to mainly swim but also work (little) with Eliezer Eskin.
August 2015
May 2015
Our grant proposal Tracing Prokaryotic Evolution via Ordered Orthology was awarded by the Israel Science Foundation. The grant will focus on loss of synteny as an evolutionary signal and will exploit it for several applications such as Phylogenetics, horizontal gene transfer detection, and alike.
July 2014
May 2014
October 2013
September 2013
December 2012
A symposium marking the retirement of Prof. Edward Trifonov
Bioinformatics: Past, Present, and Future
May 2012
December 2011
Mathematical and Computational Approaches in High-Throughput Genomics workshop at IPAM, UCLA.
September 2011
July 2010
The 13th Israeli Bioinformatics Symposium at Haifa
April 2010
September 2009
September 2009
June 2009
the Phylogeny Workshop in Alfréd Rényi Institute of Mathematics 22nd-25th June 2009.
June 2009
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July
2016Eliran and Sagi participated (and gave talks)in the 2nd Computational Genomics Summer Institute that took place at the Institute for Pure & Applied Mathematics (IPAM) at UCLA.
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Feb
2017Cryptography and Algorithms in Bioinformatics . A Workshop in Honor of Prof. Benny Chor’s 60th Birthday. Organized by Oded Goldreich and Sagi. -
July
2016Sagi will be in the program faculty of the Computational Genomics Summer Institute that will take place at the Institute for Pure & Applied Mathematics (IPAM) at UCLA. -
May
2016This year, the Israeli Bioinformatic Symposium, will be hosted at University of Haifa. Mark the day: May 18th, 2016. This year we open a tradition of having IBS a hub for Bioinfo people from academy and industry. -
January
2016Sagi has won the prestigious grant from the Volkswagen Foundation (VolkswagenStiftung) that is the largest private research funder and one of the major foundations in Germany. Together with his German partner Prof. Burkhard Morgenstern they were awarded 246,000 EURO for three years to study A Maximum-Likelihood approach to Alignment-free Phylogeny Reconstruction . -
August
2015Sagi is going for a sabbatical at UCLA to mainly swim but also work (little) with Eliezer Eskin. -
May
2015Eliran has won the prestigious IBM research fellowship and will spend the summer at Laxmi Parida’s computational genomics group at IBM research center in New York. Good luck Eliran!! -
July
2014Our grant proposal Tracing Prokaryotic Evolution via Ordered Orthology was awarded by the Israel Science Foundation. The grant will focus on loss of synteny as an evolutionary signal and will exploit it for several applications such as Phylogenetics, horizontal gene transfer detection, and alike. So we again are looking for students… -
March
2014Sagi will be visiting the workshop Computational Theories of Evolution as part of the Evolutionary Biology and the Theory of Computing program at the the Simons Institute for the Theory of Computing at Berkeley. -
Oct
2013Our paper Phylo SI: A New Genome Wide Approach for Prokaryotic Phylogeny (with Anton Shifman, Noga Ninyo, and Uri Gophna ) got into Nucleic Acids Research . The paper uses loss of synteny among organisms to construct a phylogeny. It provides greater sensitivity over rRNA based trees, while averaging the signal over the whole genome. Application to Alphaproteobacteria species could find relationship in the Brucella clade that could not be revealed by the 16S tree or the Tree Of Life. -
Sep
2013Another quartet paper (with Noga Alon and Raphy Yuster ) got into ACM-SIAM Symposium on Discrete Algorithms (SODA14). The paper, “On the compatibility of quartet trees”, shows, using probabilistic arguments, that there is a (very) inconsistent quartet set (O(n log n)-inconsistent, i.e., no tree rejects less than O(n log n) quartets), but every subset of which of size O(n/log(n)) is consistet. We also provide upper and lower bounds to the classical conjecture of Bandelt and Dress (1986) on minimum quartet incompatibility. -
Dec
2012Our Universal PaceMaker paper was chosen to the highlight of Nature Reviews Genetics. In brief, we provide a novel evolutionary model that accounts for correlations among gene rates. The rival explanation for gene correlation, the Molecular Clock hypothesis, was found significantly inferior. This finding suggests that all genes at a lineage change their (respective) rate in unison and this ranges to the earliest periods of life on Earth.
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Mar
2012A symposium marking the retirement of Prof. Edward Trifonov Bioinformatics: Past, Present, and Future
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Dec
2011Our paper (with S. Roch) on upper and lower bounds on horizontal transfer for phylogenetic reconstructibility accepted to RECOMB 2012
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Sep
2011Mathematical and Computational Approaches in High-Throughput Genomics workshop at IPAM, UCLA.
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Jul
2010We got the U.S.-Israel Binational Science Foundation (BSF) and the Israel Science Foundation (ISF) grants. The BSF is jointly with Eugene Koonin from the NCBI, NIH, titled: Analytical framework for a comprehensive analysis of the prokaryotic mobilome.
The ISF title: Using computational tools for peacing together the tree of life.
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Sep
2009A new M.Sc. Bioinformatics program with evolutionary emphasis at the Department of Evolutionary and Environmental Biology, at the University of Haifa.
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Sep
2009Our quartet approximation paper (with Raphy Yuster) got into ACM-SIAM Symposium on Discrete Algorithms (SODA10) , ACM-SIAM Symposium on Discrete Algorithms (SODA10)).
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Jun
2009Celebrating 200th anniversary of Darwin’s birth and the 150th anniversary of the publication of his book The Origin of Species , a symposium for the ley audience (in Hebrew). For English version.
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Jun
2009the Phylogeny Workshop in Alfréd Rényi Institute of Mathematics 22nd-25th June 2009.
Available Positions
We are looking for individuals who are interested in solving very challenging problems concerned with evolution which will have a large impact in biological sciences. A typical student in the lab should have a strong computational or quantitative background and is interested in biological problems.
Biological background is not mandatory (but of course cannot harm) upon starting, but is expected to be acquired gradually.
New New New New New New New
Due to recent ISF and BSF grant awards with leading labs in the US, excelent students are required. Fellowship includes high salary and visits at the partner lab.
Graduate Students
Graduate Students are welcome to start a project in the group. In particular, Computer Science or related discipline students with little biological background are very welcome. We will teach you the biology you need to know. Any extended biological knowledge is up to you.
Undergraduates
Undergraduates who are interested in working on a research project are encouraged to take relevant courses and join the lab.
In any case you are invited to contact either by phone or Email and inquire information. We are offering diversified projects in the broad area mathematical evolutionary biology. See projects list for details on available projects.