Skip to Main Content Area

List
Filter

Publications

Sort by: [ Author

] Title Type Year

Filters: First Letter Of Last Name is T [Clear All Filters]

A B C D E F G H I J K L M N O P Q R S [T] U V W X Y Z [Show ALL]

T

Tang, Y., Schneider W. M., Shen Y., Raman S., Inouye M., Baker D., et al. (2010). Fully automated high-quality NMR structure determination of small (2)H-enriched proteins. Journal of structural and functional genomics. 11(4), 223-32. Abstract Download: tang10A.pdf (451.53 KB)

Terwilliger, T. C., DiMaio F., Read R. J., Baker D., Bunkóczi G., Adams P. D., et al. (2012). phenix.mr_rosetta: molecular replacement and model rebuilding with Phenix and Rosetta.. Journal of structural and functional genomics. 13(2), 81-90. Abstract

Thayer, E. C., Bystroff C., & Baker D. (2000). Detection of protein coding sequences using a mixture model for local protein amino acid sequence. Journal of computational biology : a journal of computational molecular cell biology. 7(1-2), 317-27. Abstract Download: thayer00A.pdf (244.63 KB)

Thompson, J., & Baker D. (2011). Incorporation of evolutionary information into Rosetta comparative modeling.. Proteins. 79(8), 2380-8. Abstract Download: thompson11A.pdf (624.44 KB)

Thompson, M. J., Sievers S. A., Karanicolas J., Ivanova M. I., Baker D., & Eisenberg D. (2006). The 3D profile method for identifying fibril-forming segments of proteins. Proceedings of the National Academy of Sciences of the United States of America. 103(11), 4074-8. Abstract Download: thompson06A.pdf (738.97 KB)

Thompson, J. M., Sgourakis N. G., Liu G., Rossi P., Tang Y., Mills J. L., et al. (2012). Accurate protein structure modeling using sparse NMR data and homologous structure information.. Proceedings of the National Academy of Sciences of the United States of America. 109(25), 9875-80. Abstract

Thyme, S. B., Baker D., & Bradley P. (2012). Improved modeling of side-chain--base interactions and plasticity in protein--DNA interface design.. Journal of molecular biology. 419(3-4), 255-74. Abstract

Thyme, S. B., Jarjour J., Takeuchi R., Havranek J. J., Ashworth J., Scharenberg A. M., et al. (2009). Exploitation of binding energy for catalysis and design. Nature. 461(7268), 1300-4. Abstract Download: thyme09A.pdf (971.19 KB)

Tress, M., Cheng J., Baldi P., Joo K., Lee J., Seo J. - H., et al. (2007). Assessment of predictions submitted for the CASP7 domain prediction category. Proteins. 69 Suppl 8, 137-51. Abstract Download: tress07A.pdf (1.5 MB)

Tsai, J., Levitt M., & Baker D. (1999). Hierarchy of structure loss in MD simulations of src SH3 domain unfolding. Journal of molecular biology. 291(1), 215-25. Abstract Download: tsai99A.pdf (666.2 KB)

Tsai, J., Bonneau R., Morozov A. V., Kuhlman B., Rohl C. A., & Baker D. (2003). An improved protein decoy set for testing energy functions for protein structure prediction. Proteins. 53(1), 76-87. Abstract Download: Tsai03A.pdf (376.65 KB)

Tsemekhman, K., Goldschmidt L., Eisenberg D., & Baker D. (2007). Cooperative hydrogen bonding in amyloid formation. Protein science. 16(4), 761-4. Abstract Download: tsemekhman07A.pdf (260.96 KB)

Tyka, M. D., Keedy D. A., André I., DiMaio F., Song Y., Richardson D. C., et al. (2010). Alternate States of Proteins Revealed by Detailed Energy Landscape Mapping. Journal of molecular biology. Abstract Download: tyka10A.pdf (2.13 MB)

Tyka, M. D., Jung K., & Baker D. (2012). Efficient sampling of protein conformational space using fast loop building and batch minimization on highly parallel computers.. Journal of computational chemistry. 33(31), 2483-91. Abstract

Warning: Table './bakerDrupal/watchdog' is marked as crashed and should be repaired query: INSERT INTO watchdog (uid, type, message, variables, severity, link, location, referer, hostname, timestamp) VALUES (0, 'php', '%message in %file on line %line.', 'a:4:{s:6:\"%error\";s:7:\"warning\";s:8:\"%message\";s:397:\"date() [<a href=\'function.date\'>function.date</a>]: It is not safe to rely on the system\'s timezone settings. You are *required* to use the date.timezone setting or the date_default_timezone_set() function. In case you used any of those methods and you are still getting this warning, you most likely misspelled the timezone identifier. We selected \'America/Los_Angeles\' for \'PDT/-7.0/DST\' instead\";s:5:\"%file\";s:77:\"/nfs/bronfs/uwfs/hw00/d66/bakerpg/drupal/sites/all/modules/boost/boost.module\";s:5:\"%line\";i:2219;}', 3, '' in /nfs/bronfs/uwfs/hw00/d66/bakerpg/drupal/includes/database.mysqli.inc on line 128

Warning: Table './bakerDrupal/watchdog' is marked as crashed and should be repaired query: INSERT INTO watchdog (uid, type, message, variables, severity, link, location, referer, hostname, timestamp) VALUES (0, 'php', '%message in %file on line %line.', 'a:4:{s:6:\"%error\";s:7:\"warning\";s:8:\"%message\";s:397:\"date() [<a href=\'function.date\'>function.date</a>]: It is not safe to rely on the system\'s timezone settings. You are *required* to use the date.timezone setting or the date_default_timezone_set() function. In case you used any of those methods and you are still getting this warning, you most likely misspelled the timezone identifier. We selected \'America/Los_Angeles\' for \'PDT/-7.0/DST\' instead\";s:5:\"%file\";s:77:\"/nfs/bronfs/uwfs/hw00/d66/bakerpg/drupal/sites/all/modules/boost/boost.module\";s:5:\"%line\";i:2228;}', 3, '' in /nfs/bronfs/uwfs/hw00/d66/bakerpg/drupal/includes/database.mysqli.inc on line 128