What's New
April 8, 2008
Dr. Tuan Pham, who completed his PhD in the Jain Lab in December 2007 has accepted a position at a pre-public company in the geomic information space. The company is currently in stealth mode. We wish Tuan the best of luck!
February 5, 2008
We have published two methodological papers in a special issue of the Journal of Computer-Aided Molecular Design that relate to methodological performance testing. An additional paper describing a method for customization of scoring functions has been published separately. See the Publications tab for details.
December 1, 2007
We are pleased to announce three transitions within the laboratory. Dr. Barbara Novak, who received her PhD in the Spring, has joined Agilent Technologies. Dr. Tuan Pham has just completed his dissertation, and he will remain with the laboratory continuing his research in customized scoring functions for molecular docking. Dr. James Langham has joined the lab as a postdoctoral researcher.
March 1, 2007
We are pleased to announce the publication of a major new version of Surflex-Dock in the Journal of Computer-Aided Molecular Design (see the Publications tab). An academic version (with no official support) is available to academic researchers for non-commercial use (please see the Contact tab for an email address). Note that requests for Surflex may take weeks to process, since they are done in batch.
April 7, 2006
We are pleased to announce two transitions from the laboratory. Dr. Chris Kingsley, who received his PhD in the Fall, will be joining the Translational Genomics Institute (TGen) in Phoenix as of May 1, 2006. Dr. Taku Tokuyasu, who has been a post-doctoral scholar in the lab, has taken over as UCSF Comprehensive Cancer Center Informatics Core Manager as of April 1, 2006.
We are also pleased to announce publication of a paper describing a broad application of our molecular similarity approach to a large fraction of the space of known drugs. The paper (Cleves and Jain) will appear in J. Med. Chem. in the first half of 2006.
February 6, 2006
Dr. Lawrence Hon's paper on motif finding in higher organisms (MaMF) has been published in Bioinformatics. Lawrence joined Genentech in late January as a post-doctoral scholar in Dr. Zemin Zhang's laboratory.
January 2, 2006
We are pleased to announce that Lawrence Hon and Chris Kingsley have completed their dissertations and have been awarded PhD degrees from UCSF's Biological and Medical Informatics Graduate Program. Lawrence will be beginning a post-doctoral position at Genentech in January.
November 7, 2005
We are pleased to announce publication of three manuscripts:
1) a paper in J. Med. Chem. on the use of negative data in training scoring functions for molecular docking;
2) a paper in Cancer Informatics presenting a web-based data analysis system called Magellan;
3) a paper in Bioinformatics involving computational pathway recognition called QPACA.
Please see the Publications page.
April 1, 2004
Jane Fridlyand has accepted a position as Assistant Professor with UCSF's Epidemiolgy and Biostatistics Department. She will continue to collaborate with the lab in her new position.