bioinformatics.burnham.org

Godzik Lab Website

Bioinformatics and System Biology. BNAber: database of broadly neutralizing HIV antibodies. Physicists, biologists and computer scientists meet together to understand proteins. If you want to know more about what (and how and why) we do, read on. Most recent web servers. Updated versions of our web servers:. A user-driven, interactive multiple protein structure alignment server. Improving fold recognition by including optimized structural features and template re-ranking.

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Godzik Lab Website | bioinformatics.burnham.org Reviews

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Bioinformatics and System Biology. BNAber: database of broadly neutralizing HIV antibodies. Physicists, biologists and computer scientists meet together to understand proteins. If you want to know more about what (and how and why) we do, read on. Most recent web servers. Updated versions of our web servers:. A user-driven, interactive multiple protein structure alignment server. Improving fold recognition by including optimized structural features and template re-ranking.

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Godzik Lab Website | bioinformatics.burnham.org Reviews

https://bioinformatics.burnham.org

Bioinformatics and System Biology. BNAber: database of broadly neutralizing HIV antibodies. Physicists, biologists and computer scientists meet together to understand proteins. If you want to know more about what (and how and why) we do, read on. Most recent web servers. Updated versions of our web servers:. A user-driven, interactive multiple protein structure alignment server. Improving fold recognition by including optimized structural features and template re-ranking.

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bioinformatics.burnham.org

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Godzik Lab Website

http://bioinformatics.burnham.org/pages/people.html

Bioinformatics and System Biology. BNAber: database of broadly neutralizing HIV antibodies. Our Institute is retiring the following domains in web and email:. Please replace them by sbpdiscovery.org. People In Godzik Lab. Sorted by Last Name. Adam Godzik, Ph.D. Bioinformatics and Systems Biology. Professor, PI, Program Director. Tel: 858-646-3100 x 3168. Tel: 858-646-3100 ext 3790. Yuanyuan Chang, Ph.D. Tel: 858-646-3100 ext 4146. Piotr Cieplak, Ph.D. Research Ass. Professor. Tel: 858-646-3100 ext 3076.

2

Godzik Lab Website

http://bioinformatics.burnham.org/pages/publication.html

Bioinformatics and System Biology. BNAber: database of broadly neutralizing HIV antibodies. Our Institute is retiring the following domains in web and email:. Please replace them by sbpdiscovery.org. Porta-Pardo E, Godzik A. Mutation drivers of immunological responses to cancer. Cancer Immunol Res. 2016 Jul 11. PubMed. Thomas Hrabe, Lukasz Jaroszewski and Adam Godzik. Revealing aperiodic aspects of solenoid proteins from sequence information. Bioinformatics. 2016 Jun 9. PubMed. AIDA: ab initio domain ass...

3

Godzik Lab Website

http://bioinformatics.burnham.org/pages/servers.html

Bioinformatics and System Biology. BNAber: database of broadly neutralizing HIV antibodies. Our Institute is retiring the following domains in web and email:. Please replace them by sbpdiscovery.org. Bioinformatics Web Servers and Databases. Is a new, updated and maintained version of the F. Server is a pairwise flexible protein structure alignment server. See Bioinformatics, 2003, 19(Suppl 2):II246-II255. And Nucleic Acids Res. 2014 May 16. pii: gku394. Is a database that explores the intrinsic flexibil...

4

Godzik Lab Website

http://bioinformatics.burnham.org/pages/index.html

Bioinformatics and System Biology. BNAber: database of broadly neutralizing HIV antibodies. Our Institute is retiring the following domains in web and email:. Please replace them by sbpdiscovery.org. Physicists, biologists and computer scientists meet together to understand proteins. If you want to know more about what (and how and why) we do, read on. See our new paper. Porta-Pardo E, Godzik A., Mutation drivers of immunological responses to cancer. Cancer Immunol Res. 2016 Jul 11. A user-driven, intera...

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http://bioinformatics.burnham.org/webcal

Save login via cookies so I dont have to login next time. This application requires cookies to be enabled. WebCalendar v1.2.5 (29 Feb 2012).

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pubserver.burnham.org

Pubserver

http://pubserver.burnham.org/index.php

Papermashup.com Show Hide Plugin. PubServer collects homologous sequences from NR database and retrieves and filters associated publications. Enter protein sequence in fasta format with description line. See examples of server's input. Maximum number of iterations:. Maximum number of hits:. Sequence identity to the input sequence at least. Show publications referring to no more than. Show only proteins with journal publications. Fields to be displayed. Show vocabulary statistics from.

weizhongli-lab.org

CD-HIT Official Website

http://weizhongli-lab.org/cd-hit

Is a very widely used program for clustering and comparing protein or nucleotide sequences. CD-HIT was originally developed by Dr. Weizhong Li. At Dr Adam Godzik's Lab. At the Burnham Institute (now Sanford-Burnham Medical Research Institute). CD-HIT is very fast and can handle extremely large databases. CD-HIT helps to significantly reduce the computational and manual efforts in many sequence analysis tasks and aids in understanding the data structure and correct the bias within a dataset. We thank the ...

pubserver.godziklab.org

Pubserver

http://pubserver.godziklab.org/index.php

Papermashup.com Show Hide Plugin. PubServer collects homologous sequences from NR database and retrieves and filters associated publications. Enter protein sequence in fasta format with description line. See examples of server's input. Maximum number of iterations:. Maximum number of hits:. Sequence identity to the input sequence at least. Show publications referring to no more than. Show only proteins with journal publications. Fields to be displayed. Show vocabulary statistics from.

protmod.godziklab.org

Protein Modeling: related links

http://protmod.godziklab.org/protmod-cgi/relatedLinks.pl

Related Resources from Protein Structure Prediction. An energy-like measure of the quality of protein structure. A tool for checking the regularity of atomic packing in any given 3D model of protein. Check the Stereochemical Quality of Protein Structures. Perform energy calculations on a protein chain. A visual analysis of the quality of a putative crystal structure for a protein. Protein verification tools from the WHAT IF. Biotech Validation Suite for Protein Structures.

protmod.godziklab.org

Protein Modeling: External Servers

http://protmod.godziklab.org/protmod-cgi/displayServers.pl

Homology Methods - FFAS. A new, updated and maintained version of the Fold and Function Assignment System (FFAS). The FFAS fold assignment method is based on the profile-profile matching algorithm. The crucial part of the algorithm is the novel, two dimensional weighting scheme which takes into account the topology of the evolutionary tree of all the proteins in the homologous family. Homology Methods - suboptFFAS. Modeling Methods - Modeller. Modeling Methods - SCWRL.

ffas.sanfordburnham.org

FFAS03 documentation

http://ffas.sanfordburnham.org/ffas-cgi/cgi/document.pl

Available lists of results. Align 2 sequences, dot plot. The databases are updated with the latest structural and sequence information (see Updates. Rychlewski, L., Jaroszewski, L., Li, W. and Godzik, A. (2000). Comparison of sequence profiles. Strategies for structural predictions using sequence information. Protein Science. Jaroszewski, L., Rychlewski, L. and Godzik, A. (2000). Improving the quality of twilight-zone alignments. Protein Science. 2013) doi: 10.1093. PubMed. Step 3: Calculation of an alig...

ffas.sanfordburnham.org

FFAS03 documentation

http://ffas.sanfordburnham.org/ffas-cgi/cgi/document.pl?ses=&rv=&lv=

Available lists of results. Align 2 sequences, dot plot. The databases are updated with the latest structural and sequence information (see Updates. Rychlewski, L., Jaroszewski, L., Li, W. and Godzik, A. (2000). Comparison of sequence profiles. Strategies for structural predictions using sequence information. Protein Science. Jaroszewski, L., Rychlewski, L. and Godzik, A. (2000). Improving the quality of twilight-zone alignments. Protein Science. 2013) doi: 10.1093. PubMed. Step 3: Calculation of an alig...

ffas.godziklab.org

FFAS03 documentation

http://ffas.godziklab.org/ffas-cgi/cgi/document.pl

Available lists of results. Align 2 sequences, dot plot. The databases are updated with the latest structural and sequence information (see Updates. Rychlewski, L., Jaroszewski, L., Li, W. and Godzik, A. (2000). Comparison of sequence profiles. Strategies for structural predictions using sequence information. Protein Science. Jaroszewski, L., Rychlewski, L. and Godzik, A. (2000). Improving the quality of twilight-zone alignments. Protein Science. 2013) doi: 10.1093. PubMed. Step 3: Calculation of an alig...

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Bioinformatics and System Biology. BNAber: database of broadly neutralizing HIV antibodies. Physicists, biologists and computer scientists meet together to understand proteins. If you want to know more about what (and how and why) we do, read on. Most recent web servers. Updated versions of our web servers:. A user-driven, interactive multiple protein structure alignment server. Improving fold recognition by including optimized structural features and template re-ranking.

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