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Joan Segura - Publications

Affiliations: 
2015- Natl. Center of Biotechnology (CSIC) 
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28 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Segura J, Rose Y, Bi C, Duarte J, Burley SK, Bittrich S. RCSB Protein Data Bank: visualizing groups of experimentally determined PDB structures alongside computed structure models of proteins. Frontiers in Bioinformatics. 3: 1311287. PMID 38111685 DOI: 10.3389/fbinf.2023.1311287  0.315
2023 Mirela Bota P, Hernandez AC, Segura J, Gallego O, Oliva B, Fernandez-Fuentes N. CM2D3: Furnishing the human interactome with structural models of protein complexes derived by comparative modeling and docking. Journal of Molecular Biology. 168055. PMID 36958605 DOI: 10.1016/j.jmb.2023.168055  0.304
2023 Bittrich S, Bhikadiya C, Bi C, Chao H, Duarte JM, Dutta S, Fayazi M, Henry J, Khokhriakov I, Lowe R, Piehl DW, Segura J, Vallat B, Voigt M, Westbrook JD, et al. RCSB Protein Data Bank: Efficient Searching and Simultaneous Access to One Million Computed Structure Models Alongside the PDB Structures Enabled by Architectural Advances. Journal of Molecular Biology. 167994. PMID 36738985 DOI: 10.1016/j.jmb.2023.167994  0.351
2022 Burley SK, Bhikadiya C, Bi C, Bittrich S, Chao H, Chen L, Craig PA, Crichlow GV, Dalenberg K, Duarte JM, Dutta S, Fayazi M, Feng Z, Flatt JW, Ganesan S, ... ... Segura J, et al. RCSB Protein Data Bank (RCSB.org): delivery of experimentally-determined PDB structures alongside one million computed structure models of proteins from artificial intelligence/machine learning. Nucleic Acids Research. PMID 36420884 DOI: 10.1093/nar/gkac1077  0.315
2020 Sanchez-Garcia R, Segura J, Maluenda D, Sorzano COS, Carazo JM. MicrographCleaner: A python package for cryo-EM micrograph cleaning using deep learning. Journal of Structural Biology. 107498. PMID 32276087 DOI: 10.1016/J.Jsb.2020.107498  0.766
2019 Morris C, Andreetto P, Banci L, Bonvin AMJJ, Chojnowski G, Cano LD, Carazo JM, Conesa P, Daenke S, Damaskos G, Giachetti A, Haley NEC, Hekkelman ML, Heuser P, Joosten RP, ... ... Segura J, et al. West-Life: A Virtual Research Environment for structural biology. Journal of Structural Biology: X. 1: 100006. PMID 32647812 DOI: 10.1016/j.yjsbx.2019.100006  0.636
2019 Segura J, Sanchez-Garcia R, Sorzano COS, Carazo JM. 3DBIONOTES v3.0: Crossing molecular and structural biology data with genomic variations. Bioinformatics (Oxford, England). PMID 30768147 DOI: 10.1093/Bioinformatics/Btz118  0.655
2019 Sorzano COS, Jiménez A, Mota J, Vilas JL, Maluenda D, Martínez M, Ramírez-Aportela E, Majtner T, Segura J, Sánchez-García R, Rancel Y, Del Caño L, Conesa P, Melero R, Jonic S, et al. Survey of the analysis of continuous conformational variability of biological macromolecules by electron microscopy. Acta Crystallographica. Section F, Structural Biology Communications. 75: 19-32. PMID 30605122 DOI: 10.1107/S2053230X18015108  0.673
2018 Jiménez A, Jonic S, Majtner T, Otón J, Vilas JL, Maluenda D, Mota J, Ramírez-Aportela E, Martínez M, Rancel Y, Segura J, Sánchez-García R, Melero R, Del Cano L, Conesa P, et al. Validation of Electron Microscopy Initial Models via Small Angle X-Ray Scattering Curves. Bioinformatics (Oxford, England). PMID 30500892 DOI: 10.1093/Bioinformatics/Bty985  0.642
2018 Sanchez-Garcia R, Segura J, Maluenda D, Carazo JM, Sorzano COS. , a deep learning-based approach for particle pruning in cryo-electron microscopy. Iucrj. 5: 854-865. PMID 30443369 DOI: 10.1107/S2052252518014392  0.766
2018 Sanchez-Garcia R, Sorzano COS, Carazo JM, Segura J. BIPSPI: a method for the prediction of Partner-Specific Protein-Protein Interfaces. Bioinformatics (Oxford, England). PMID 30020406 DOI: 10.1093/Bioinformatics/Bty647  0.638
2018 Conesa Mingo P, Gutierrez J, Quintana A, de la Rosa Trevín JM, Zaldívar-Peraza A, Cuenca Alba J, Kazemi M, Vargas J, Del Cano L, Segura J, Sorzano COS, Carazo JM. Scipion web tools: Easy to use cryo-EM image processing over the web. Protein Science : a Publication of the Protein Society. 27: 269-275. PMID 28971542 DOI: 10.1002/Pro.3315  0.69
2017 Sanchez-Garcia R, Sorzano COS, Carazo JM, Segura J. 3DCONS-DB: A Database of Position-Specific Scoring Matrices in Protein Structures. Molecules (Basel, Switzerland). 22. PMID 29244774 DOI: 10.3390/Molecules22122230  0.667
2017 Segura J, Sanchez-Garcia R, Martinez M, Cuenca-Alba J, Tabas-Madrid D, Sorzano COS, Carazo JM. 3DBIONOTES v2.0: a web server for the automatic annotation of macromolecular structures. Bioinformatics (Oxford, England). 33: 3655-3657. PMID 28961691 DOI: 10.1093/Bioinformatics/Btx483  0.705
2016 Poglayen D, Marín-López MA, Bonet J, Fornes O, Garcia-Garcia J, Planas-Iglesias J, Segura J, Oliva B, Fernandez-Fuentes N. InteractoMIX: a suite of computational tools to exploit interactomes in biological and clinical research. Biochemical Society Transactions. 44: 917-24. PMID 27284060 DOI: 10.1042/Bst20150001  0.36
2016 Lensink MF, Velankar S, Kryshtafovych A, Huang SY, Schneidman-Duhovny D, Sali A, Segura J, Fernandez-Fuentes N, Viswanath S, Elber R, Grudinin S, Popov P, Neveu E, Lee H, Baek M, et al. Prediction of homo- and hetero-protein complexes by protein docking and template-based modeling: a CASP-CAPRI experiment. Proteins. PMID 27122118 DOI: 10.1002/Prot.25007  0.31
2016 Tabas-Madrid D, Segura J, Sanchez-Garcia R, Cuenca-Alba J, Sorzano CO, Carazo JM. 3DBIONOTES: A unified, enriched and interactive view of macromolecular information. Journal of Structural Biology. 194: 231-4. PMID 26873783 DOI: 10.1016/J.Jsb.2016.02.007  0.717
2016 Segura J, Sanchez-Garcia R, Tabas-Madrid D, Cuenca-Alba J, Sorzano CO, Carazo JM. 3DIANA: 3D Domain Interaction Analysis: A Toolbox for Quaternary Structure Modeling. Biophysical Journal. 110: 766-75. PMID 26772592 DOI: 10.1016/J.Bpj.2015.11.3519  0.729
2015 Segura J, Sorzano CO, Cuenca-Alba J, Aloy P, Carazo JM. Using neighborhood cohesiveness to infer interactions between protein domains. Bioinformatics (Oxford, England). 31: 2545-52. PMID 25838464 DOI: 10.1093/Bioinformatics/Btv188  0.671
2015 Segura J, Marín-López MA, Jones PF, Oliva B, Fernandez-Fuentes N. VORFFIP-driven dock: V-D2OCK, a fast and accurate protein docking strategy. Plos One. 10: e0118107. PMID 25763838 DOI: 10.1371/Journal.Pone.0118107  0.414
2014 Bonet J, Segura J, Planas-Iglesias J, Oliva B, Fernandez-Fuentes N. Frag'r'Us: knowledge-based sampling of protein backbone conformations for de novo structure-based protein design. Bioinformatics (Oxford, England). 30: 1935-6. PMID 24603983 DOI: 10.1093/Bioinformatics/Btu129  0.392
2012 Segura J, Jones PF, Fernandez-Fuentes N. A holistic in silico approach to predict functional sites in protein structures. Bioinformatics (Oxford, England). 28: 1845-50. PMID 22563069 DOI: 10.1093/Bioinformatics/Bts269  0.318
2012 Jiménez-Lozano N, Segura J, Macías JR, Vega J, Carazo JM. Integrating human and murine anatomical gene expression data for improved comparisons. Bioinformatics (Oxford, England). 28: 397-402. PMID 22106336 DOI: 10.1093/Bioinformatics/Btr639  0.621
2012 Segura J, Oliva B, Fernandez-Fuentes N. CAPS-DB: a structural classification of helix-capping motifs. Nucleic Acids Research. 40: D479-85. PMID 22021380 DOI: 10.1093/Nar/Gkr879  0.353
2011 Segura J, Jones PF, Fernandez-Fuentes N. Improving the prediction of protein binding sites by combining heterogeneous data and Voronoi diagrams. Bmc Bioinformatics. 12: 352. PMID 21861881 DOI: 10.1186/1471-2105-12-352  0.35
2011 Segura J, Fernandez-Fuentes N. PCRPi-DB: a database of computationally annotated hot spots in protein interfaces. Nucleic Acids Research. 39: D755-60. PMID 21097468 DOI: 10.1093/Nar/Gkq1068  0.356
2009 Jiménez-Lozano N, Segura J, Macías JR, Vega J, Carazo JM. aGEM: an integrative system for analyzing spatial-temporal gene-expression information. Bioinformatics (Oxford, England). 25: 2566-72. PMID 19592395 DOI: 10.1093/Bioinformatics/Btp422  0.64
2009 Rocha J, Segura J, Wilson RC, Dasgupta S. Flexible structural protein alignment by a sequence of local transformations. Bioinformatics (Oxford, England). 25: 1625-31. PMID 19417057 DOI: 10.1093/Bioinformatics/Btp296  0.406
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