Publications include scientific papers, posters, films, videos, exhibits, and artwork.
A substantial portion of the funding for the development of Chimera comes from a National Center for Research Resources grant (P41 RR-01081) from the National Institutes of Health. Consequently, publications that result from work using Chimera (e.g., contain graphical images produced with Chimera) should acknowledge our laboratory. We ask that a statement similar to the following be used:
Molecular graphics images were produced using the UCSF Chimera package from the Resource for Biocomputing, Visualization, and Informatics at the University of California, San Francisco (supported by NIH P41 RR-01081).
Please cite Chimera using the following primary reference:
The Chimera home page http://www.cgl.ucsf.edu/chimera can also be cited, depending on the publication. Please e-mail us the citation of your publication for our records.Pettersen, E.F., Goddard, T.D., Huang, C.C., Couch, G.S., Greenblatt, D.M., Meng, E.C., and Ferrin, T.E. "UCSF Chimera - A Visualization System for Exploratory Research and Analysis." J. Comput. Chem. 25(13):1605-1612 (2004).
Additional citations may be appropriate if certain features of Chimera are used:
- The solvent-excluded molecular surfaces produced by Chimera are created with the help of the MSMS package from Prof. Michel Sanner. Publications with images of such surfaces should cite:
Sanner, M.F., Olson, A.J., and Spehner, J.C. "Reduced surface: an efficient way to compute molecular surfaces." Biopolymers 38(3):305-320 (1996).
- In Chimera's Multalign Viewer, the sequence-alignment conservation values shown as a histogram may be calculated by the program AL2CO. The Multalign Viewer preferences (Analysis section) control which calculation method is used. Published work using AL2CO conservation values should cite:
Pei, J. and Grishin, N.V. "AL2CO: calculation of positional conservation in a protein sequence alignment" Bioinformatics 17(8):700-712 (2001).
Please note that NIH carefully tracks publications that make use of NCRR Resource Centers such as the RBVI and hence your cooperation is appreciated in properly citing the grant number and references listed above. Thank you.
Chimera is the result of the work of many individuals: Conrad Huang, Greg Couch, Eric Pettersen, Thomas Ferrin, Tom Goddard, Elaine Meng, Daniel Greenblatt, David Konerding, Heidi Houtkooper, Teri Klein, Willa Crowell, Norma Belfer, Robin Parsons, and many others.
Chimera incorporates many publicly available software packages. Please read the following list for details.