Zobrazeno 1 - 10
of 56
pro vyhledávání: '"Jose M Duarte"'
Publikováno v:
PLoS Computational Biology, Vol 16, Iss 7, p e1007970 (2020)
Detection of protein structure similarity is a central challenge in structural bioinformatics. Comparisons are usually performed at the polypeptide chain level, however the functional form of a protein within the cell is often an oligomer. This fact,
Externí odkaz:
https://doaj.org/article/b567fa7776604fe1aa12e25bb981f82a
Autor:
Aleix Lafita, Spencer Bliven, Andreas Prlić, Dmytro Guzenko, Peter W Rose, Anthony Bradley, Paolo Pavan, Douglas Myers-Turnbull, Yana Valasatava, Michael Heuer, Matt Larson, Stephen K Burley, Jose M Duarte
Publikováno v:
PLoS Computational Biology, Vol 15, Iss 2, p e1006791 (2019)
BioJava is an open-source project that provides a Java library for processing biological data. The project aims to simplify bioinformatic analyses by implementing parsers, data structures, and algorithms for common tasks in genomics, structural biolo
Externí odkaz:
https://doaj.org/article/5c110558d5a8402a913e0beeea63fb8e
Publikováno v:
PLoS Computational Biology, Vol 14, Iss 4, p e1006104 (2018)
A correct assessment of the quaternary structure of proteins is a fundamental prerequisite to understanding their function, physico-chemical properties and mode of interaction with other proteins. Currently about 90% of structures in the Protein Data
Externí odkaz:
https://doaj.org/article/482ad4f909ee4490bc71b6a82063cdaa
Autor:
Selcuk Korkmaz, Jose M Duarte, Andreas Prlić, Dincer Goksuluk, Gokmen Zararsiz, Osman Saracbasi, Stephen K Burley, Peter W Rose
Publikováno v:
PLoS ONE, Vol 13, Iss 6, p e0197176 (2018)
The Protein Data Bank (PDB) is the single worldwide archive of experimentally-determined three-dimensional (3D) structures of proteins and nucleic acids. As of January 2017, the PDB housed more than 125,000 structures and was growing by more than 11,
Externí odkaz:
https://doaj.org/article/338fec011811482497f84d702a4e4972
Autor:
Anthony R Bradley, Alexander S Rose, Antonín Pavelka, Yana Valasatava, Jose M Duarte, Andreas Prlić, Peter W Rose
Publikováno v:
PLoS Computational Biology, Vol 13, Iss 6, p e1005575 (2017)
Recent advances in experimental techniques have led to a rapid growth in complexity, size, and number of macromolecular structures that are made available through the Protein Data Bank. This creates a challenge for macromolecular visualization and an
Externí odkaz:
https://doaj.org/article/88018fe7dcfe4aa998d53183b943f2e7
Autor:
Yana Valasatava, Anthony R Bradley, Alexander S Rose, Jose M Duarte, Andreas Prlić, Peter W Rose
Publikováno v:
PLoS ONE, Vol 12, Iss 3, p e0174846 (2017)
The size and complexity of 3D macromolecular structures available in the Protein Data Bank is constantly growing. Current tools and file formats have reached limits of scalability. New compression approaches are required to support the visualization
Externí odkaz:
https://doaj.org/article/aefe948c260a461eb66e2059038bfed4
Publikováno v:
PLoS Computational Biology, Vol 5, Iss 12, p e1000584 (2009)
The network of native non-covalent residue contacts determines the three-dimensional structure of a protein. However, not all contacts are of equal structural significance, and little knowledge exists about a minimal, yet sufficient, subset required
Externí odkaz:
https://doaj.org/article/d0f6f74b01134fa181f374ad04f13fb9
Autor:
Mohammed Ghiboub, Jing Zhao, Andrew Y. F. Li Yim, Ronald Schilderink, Caroline Verseijden, Patricia H. P. van Hamersveld, Jose M. Duarte, Theodorus B. M. Hakvoort, Iris Admiraal, Nicola R. Harker, David F. Tough, Peter Henneman, Menno P. J. de Winther, Wouter J. de Jonge
Publikováno v:
Frontiers in Immunology, Vol 11 (2020)
Histone deacetylases (HDACs) are a group of enzymes that control histone deacetylation and bear potential to direct expression of large gene sets. We determined the effect of HDAC inhibitors (HDACi) on human monocytes and macrophages, with respect to
Externí odkaz:
https://doaj.org/article/a74ef761dc23407aa1f2acb610c86280
Autor:
Stephen K Burley, Charmi Bhikadiya, Chunxiao Bi, Sebastian Bittrich, Henry Chao, Li Chen, Paul A Craig, Gregg V Crichlow, Kenneth Dalenberg, Jose M Duarte, Shuchismita Dutta, Maryam Fayazi, Zukang Feng, Justin W Flatt, Sai Ganesan, Sutapa Ghosh, David S Goodsell, Rachel Kramer Green, Vladimir Guranovic, Jeremy Henry, Brian P Hudson, Igor Khokhriakov, Catherine L Lawson, Yuhe Liang, Robert Lowe, Ezra Peisach, Irina Persikova, Dennis W Piehl, Yana Rose, Andrej Sali, Joan Segura, Monica Sekharan, Chenghua Shao, Brinda Vallat, Maria Voigt, Ben Webb, John D Westbrook, Shamara Whetstone, Jasmine Y Young, Arthur Zalevsky, Christine Zardecki
Publikováno v:
Nucleic Acids Research. 51:D488-D508
The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), founding member of the Worldwide Protein Data Bank (wwPDB), is the US data center for the open-access PDB archive. As wwPDB-designated Archive Keeper, RCSB PDB is
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::504619fca195c6a17681b3527b399ef9
https://doi.org/10.1093/nar/gkac1077
https://doi.org/10.1093/nar/gkac1077
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