Resource for Biocomputing, Visualization, and Informatics (RBVI)
University of California, M/S 2240
600 16th Street, Rm N472
San Francisco, CA 94158-2517

Phone: 415-476-2299
Email: tef [at]

Assistant: JoAnne Williams
Joanne.Williams [at]


Research Interests:

My research focuses on developing cutting-edge interactive software tools and advanced web-based computational resources that provide integrated visualizations and analyses of molecular structures and related non-structural biological information. Our tools can be applied to diverse types of biomolecular data, including atomic-resolution coordinates, 3D density maps and light microscopy data, and protein and nucleic acid sequences, annotations, and networks. Our primary efforts are in the interactive visualization and analysis of structures of molecules and molecular assemblies, protein sequence-structure-function relationships, and network representations of protein similarity, binding interactions, and biological pathways. These areas are critical for addressing important and highly relevant biomedical problems such as identifying the molecular bases of disease, annotating proteins of unknown function, identifying targets for drug development, designing drugs, and engineering proteins with new functions. We have a strong track record of creating well-documented robust software tools and disseminating these via our web site ( so that other scientists can advance their own research programs effectively.

Also see my UCSF Profiles page.


Selected Publications:

PubMed search of all publications authored by T.E. Ferrin, or view my Google Scholar Profile.

Some Invited Lectures and Seminars:

From Long Long Ago:

Molecular graphics for visualizing proteins and drugs (1980):
The Computer Revolution in Biomedical Science
Interactive Molecular Graphics (video, 13:39 minutes -- no audio track)
My UNIX kernel-hacking days (late 70's / early 80's) -- Adding interactive graphics to UNIX:
Interactive Computer Graphics and the UNIX Time-Sharing System (1979)
Picture System 2 Graphics Subroutine Package (ps2gsp)
Changing PDP-11/70 hardware instructions and the Letter reprinted from ;login: that raised a few eyebrows (1978)
Our Unix Version 6 License from Western Electric Co. (1976)
Twenty Years of Berkeley Unix by Marshall Kirk McKusick
The Daemon, the GNU, and the Penguin: A History of Free and Open Source by Dr. Peter H. Salus
BSD and the Computer Systems Research Group (CSRG)
CSRG Members, Supporters, and Contributors
Young and (maybe a little) Reckless -- My drag racing days (late 60's):
Ky Michaelson's AA/GD dragsters [picture (1970)]
The Snow Dragster
Hydrogen Peroxide Rocket Dragsters

Other Fun / Interesting Links: