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Laboratory for Computational
Biology and Bioinformatics




News (2009-present):

  • December 2010  Alisa Yurovsky travelled to Hong Kong to present a paper at the 4th Int'l Conf. on Bioinformatics & Biomedicine BIBM'10.
  • November 2010  Xiuwei Zhang travelled to New York to give a poster and an invited oral presentation at the 7th RECOMB Conf. on Regulatory Genomics RECOMB-RG'11.
  • August 23, 2010  Dr. Nicholas Pattengale, senior member of the technical staff at Sandia National Laboratories, joins us for a week of joint work on phylogenetic post-analysis, particularly tree consensus and tree-to-tree distance measures.
  • August 1, 2010  Prof. Jijun Tang, from the U. of South Carolina, joins us for two weeks to work on rearrangement-based phylogenetic reconstruction.
  • July 14, 2010  Prof. Tandy Warnow, from the U. of Texas, arrives today to spend the rest of the summer working with our laboratory on research in large-scale phylogenetic inference. Prof. Warnow is a long-time collaborator; she was recently awarded a prestigious Guggenheim Fellowship to spend part of 2010-2011 working with our laboratory, so this is a first 7-week visit, to be followed by a longer one next spring.
  • July 12, 2010  Congratulations to Alisa Yurovsky, who successfully defended her MS thesis in front of an appreciative audience (great presentation) and of external expert Prof. Steven Salzberg, director of the Center for Bioinformatics and Computational Biology at the U. of Maryland.
  • June 30, 2010  Congratulations to our "new" PhD students Slavica Dimitrieva, Cristina Ghiurcuta, and Nishanth Nair: all three passed their PhD Candidacy examinations over these past two days.
  • June 11, 2010  Our summer student, Ms. Olga Ponomarova, has arrived. Ms. Ponomarova comes from Ukraine and will work on the reverse engineering of regulatory networks. We are all delighted to have her company for the next three months.
  • May 2010  Postdoctoral fellow Wei Xu has accepted an offer for a second postdoctoral fellowship in the laboratory of Prof. Eric Xing at Carnegie Mellon University (the SAILING lab) and so will be leaving our laboratory by the end of July. At CMU, Wei will shift his research emphasis towards machine learning and working with primary data, complementing the more theoretical work he has done so far in his PhD and in our lab. Congratulations Wei!
  • May 7, 2010  Further congratulations to Dr. Nicholas Pattengale, who just received the QForma prize for the best UNM dissertation in engineering and computation in the 2009-2010 academic year!
  • April 7, 2010  Congratulations to Panteleimon Zotos, who successfully defended his MS thesis today, in the presence of his supervisor, Ms. Li Long, and the external expert, Prof. Ioannis Xenarios. Pantelis did his work at the Swiss Institute of Bioinformatics.
  • March 29, 2010  Congratulations to Dr. Nicholas Pattengale, who successfully defended his dissertation this afternoon at the University of New Mexico, in the presence of committee members Jared Saia (UNM, committee chair), Bernard Moret (EPFL, advisor), and Alexandros Stamatakis (TU Munich). The committee unanimously awarded distinction (given to the top 5-10\% of dissertations).
  • November 10, 2009  Congratulations to Dr. Krister Swenson, who successfully defended his dissertation this afternoon, in the presence of jury members Profs. Babak Falsafi (EPFL, jury president), Anastasia Ailamaki (EPFL), Marie-France Sagot (U. Lyon and INRIA), David Sankoff (U. Ottawa), and Bernard Moret. The jury unanimously nominated the work for the annual EPFL Dissertation Award.
  • October 2009  Cristina Ghiurcuta has joined our lab, completing our team for this coming academic year. All of us at the lab are involved in the Advanced Algorithms course for this fall, Nishanth and Cristina taking the course, Bernard teaching it, and Vaibhav, Wei, Xiuwei, Yann, and Yu working as TAs for it.
  • September 2009  New faces, and missing old friends... Oana Jurj completed her summer in our lab and returned to Timisoara, where she will start her MS program; she leaves behind many friends and will be missed. Krister Swenson left for Canada to start his postdoctoral studies with David Sankoff at the University of Ottawa (and with Anne Bergeron at the University of Montreal). We are all desolate -- Krister made a lot of friends, had assumed quiet leadership in the lab, and had been working with Bernard Moret since 2002 in New Mexico (learning how to rock climb with him). We are also very proud of what Krister has achieved and looking forward to continue working with him. He will return for 10 days in early November for the formal defense of his Ph.D. and suitable festivities!

    Fortunately, in this time of separation, we were delighted to welcome Nishanth Nair to our lab. Nishanth arrived on Sept. 14 and is already a familiar figure in the lab. Cristina Ghiurcuta will arrive at the end of the month and complete our new roster.

  • July 2009  We are very happy to report that Cristina Ghiurcuta and Nishanth Nair will join the EPFL PhD program this fall and work in our lab. Cristina is completing her MS at the University of Timisoara in Romania, while Nishanth finished his MS at the Indian Institute of Science in Bangalore and is currently working for Microsoft Research. We are looking forward to welcoming them both in the lab this fall.
  • June 1, 2009  Ms. Oana Jurj joins our laboratory for a 3-month research summer; she is finishing her degree at the University of Timisoara in Romania and is interested in machine learning.

News (inception-2008)



Open Positions:

We are always looking for another great Ph.D. student.
Prerequisites for an RA position are a 4-year BS degree or MS degree in Computer Science or an MS in any of Mathematics, Biology, Physics, and related areas, with a strong background in computing and theory. A predilection for theory, algorithm development, programming, simulation, and testing is a big plus.
In order to join our laboratory, you must first be admitted to the PhD program in Computer Science, called EDIC. You can find information, details on the application procedure, and deadlines at the EDIC website. Please note that admission is very competitive; last year, we had around 800 applicants to the program, for around 60 positions.


We also are happy to discuss possible projects for MS students (I&C or Life Sciences).
Please enquire directly with Prof. Moret.


Contact:

Send email to Professor Moret (bernard.moret@epfl.ch).

Technical Notes:

This lab is a Microsoft-free zone -- all of our machines run Linux. We are doing this for rather obvious technical as well as ethical reasons, most of which are well documented in numerous sites on the web. (In particular, note that any documents sent to us in Microsoft-proprietary formats, such as Word documents, will be discarded without reading.)

For a humorous and fast-reading account of OS development, as well as another take on the Microsoft empire and its competition, you should definitely read "In The Beginning There Was The Command Line", by Neal Stephenson (widely available online).

The pages on this site are best viewed with Mozilla (now called Seamonkey) or any of its numerous derivatives, such as Iceape, Camino, Epiphany, Firefox, Iceweasel, or Galeon), or Safari. We are using two True Type fonts (Impact and Trebuchet MS), which Microsoft's own IE (ironically, as these fonts were originally released by Microsoft) does not render well, especially at small sizes.