Search Results - "Garavelli, John"

The RESID Database of Protein Modifications as a resource and annotation tool by Garavelli, John S.

“…The RESID Database of Protein Modifications is a comprehensive collection of annotations and structures for protein modifications and cross‐links including…”
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The PSI-MOD community standard for representation of protein modification data by Garavelli, John S, Montecchi-Palazzi, Luisa, Beavis, Ron, Binz, Pierre-Alain, Chalkley, Robert J, Cottrell, John, Creasy, David, Shofstahl, Jim, Seymour, Sean L

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Missing in action: enzyme functional annotations in biological databases by Furnham, Nicholas, Garavelli, John S, Apweiler, Rolf, Thornton, Janet M

“…Annotations of enzyme function provide critical starting points for generating and testing biological hypotheses, but the quality of functional annotations is…”
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PIRSitePredict for protein functional site prediction using position-specific rules by Chen, Chuming, Wang, Qinghua, Huang, Hongzhan, Vinayaka, Cholanayakanahalli R, Garavelli, John S, Arighi, Cecilia N, Natale, Darren A, Wu, Cathy H

“…Methods focused on predicting 'global' annotations for proteins (such as molecular function, biological process and presence of domains or membership in a…”
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ProSight PTM: an integrated environment for protein identification and characterization by top-down mass spectrometry by LeDuc, Richard D., Taylor, Gregory K., Kim, Yong-Bin, Januszyk, Thomas E., Bynum, Lee H., Sola, Joseph V., Garavelli, John S., Kelleher, Neil L.

“…ProSight PTM (https://prosightptm.scs.uiuc.edu/) is a web application for identification and characterization of proteins using mass spectra data from…”
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Annotation of post-translational modifications in the Swiss-Prot knowledge base by Farriol-Mathis, Nathalie, Garavelli, John S., Boeckmann, Brigitte, Duvaud, Séverine, Gasteiger, Elisabeth, Gateau, Alain, Veuthey, Anne-Lise, Bairoch, Amos

“…High‐throughput proteomic studies produce a wealth of new information regarding post‐translational modifications (PTMs). The Swiss‐Prot knowledge base is faced…”
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Interpreting Sequences from Mastodon and T. rex by Asara, John M., Garavelli, John S., Slatter, David A., Schweitzer, Mary H., Freimark, Lisa M., Phillips, Matthew, Cantley, Lewis C.

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Hydroxylamine Reductase Activity of the Hybrid Cluster Protein from Escherichia coli by Wolfe, Marcus T, Heo, Jongyun, Garavelli, John S, Ludden, Paul W

“…Article Usage Stats Services JB Citing Articles Google Scholar PubMed Related Content Social Bookmarking CiteULike Delicious Digg Facebook Google+ Mendeley…”
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The RESID Database of Protein Modifications: 2003 developments by Garavelli, John S

“…The RESID Database is a comprehensive collection of annotations and structures for protein pre-, co- and post-translational modifications including…”
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The work of the Human Proteome Organisation's Proteomics Standards Initiative (HUPO PSI) by Taylor, Chris F, Hermjakob, Henning, Julian, Jr, Randall K, Garavelli, John S, Aebersold, Ruedi, Apweiler, Rolf

“…This article describes the origins, working practices and various development projects of the HUman Proteome Organisation's Proteomics Standards Initiative…”
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The protein information resource (PIR) by Barker, W C, Garavelli, J S, Huang, H, McGarvey, P B, Orcutt, B C, Srinivasarao, G Y, Xiao, C, Yeh, L S, Ledley, R S, Janda, J F, Pfeiffer, F, Mewes, H W, Tsugita, A, Wu, C

“…The Protein Information Resource (PIR) produces the largest, most comprehensive, annotated protein sequence database in the public domain, the…”
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"Good Annotation Practice" for Chemical Data in Biology by Degtyarenko, Kirill, Ennis, Marcus, Garavelli, John S.

“…A structural diagram, in the form of a two-dimensional (2-D) sketch, remains the most effective portrait of a "small molecule" or chemical reaction. However,…”
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Autumn 2005 Workshop of the Human Proteome Organisation Proteomics Standards Initiative (HUPO-PSI) Geneva, September, 4-6, 2005 by Orchard, Sandra, Hermjakob, Henning, Taylor, Chris, Binz, Pierre-Alain, Hoogland, Christine, Julian, Randall, Garavelli, John S., Aebersold, Ruedi, Apweiler, Rolf

“…The autumn workshop of the Proteomics Standards Initiative of the Human Proteomics Organisation met to further advance the development of the existing…”
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Protein Information Resource: a community resource for expert annotation of protein data by Barker, W C, Garavelli, J S, Hou, Z, Huang, H, Ledley, R S, McGarvey, P B, Mewes, H W, Orcutt, B C, Pfeiffer, F, Tsugita, A, Vinayaka, C R, Xiao, C, Yeh, L S, Wu, C

“…The Protein Information Resource, in collaboration with the Munich Information Center for Protein Sequences (MIPS) and the Japan International Protein…”
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Proteomics and Beyond A report on the 3rd Annual Spring Workshop of the HUPO-PSI 21-23 April 2006, San Francisco, CA, USA by Orchard, Sandra, Apweiler, Rolf, Barkovich, Robert, Field, Dawn, Garavelli, John S., Horn, David, Jones, Andy, Jones, Philip, Julian, Randall, McNally, Ruth, Nerothin, Jason, Paton, Norman, Pizarro, Angel, Seymour, Sean, Taylor, Chris, Wiemann, Stefan, Hermjakob, Henning

“…The theme of the third annual Spring workshop of the HUPO‐PSI was “proteomics and beyond” and its underlying goal was to reach beyond the boundaries of the…”
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The RESID database of protein structure modifications: 2000 update by Garavelli, J S

“…The RESID Database contains supplemental information on post-translational modifications for the standardized annotations appearing in the PIR-International…”
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Proteoform: a single term describing protein complexity by Smith, Lloyd M, Kelleher, Neil L

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The PIR-International Protein Sequence Database by Barker, Winona C., Garavelli, John S., McGarvey, Peter B., Marzec, Christopher R., Orcutt, Bruce C., Srinivasarao, Geetha Y., Yeh, Lai-Su L., Ledley, Robert S., Mewes, Hans-Werner, Pfeiffer, Friedhelm, Tsugita, Akira, Wu, Cathy

“…The Protein Information Resource (PIR; http://wwwnbrf.georgetown.edu/pir/) supports research on molecular evolution, functional genomics, and computational…”
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The RESID Database of protein structure modifications and the NRL-3D Sequence-Structure Database by Garavelli, J S, Hou, Z, Pattabiraman, N, Stephens, R M

“…The RESID Database is a comprehensive collection of annotations and structures for protein post-translational modifications including N-terminal, C-terminal…”
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PIR: a new resource for bioinformatics by McGarvey, Peter B., Huang, Hongzhan, Barker, Winona C., Orcutt, Bruce C., Garavelli, John S., Srinivasarao, Geetha Y., Yeh, Lai-Su L., Xiao, Chunlin, Wu, Cathy H.

“…The Protein Information Resource (PIR) has greatly expanded its Web site and developed a set of interactive search and analysis tools to facilitate the…”
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