Zobrazeno 1 - 10
of 18
pro vyhledávání: '"Monica Berrondo"'
Autor:
Jordan Graves, Jacob Byerly, Eduardo Priego, Naren Makkapati, S. Vince Parish, Brenda Medellin, Monica Berrondo
Publikováno v:
Antibodies, Vol 9, Iss 2, p 12 (2020)
Driven by its successes across domains such as computer vision and natural language processing, deep learning has recently entered the field of biology by aiding in cellular image classification, finding genomic connections, and advancing drug discov
Externí odkaz:
https://doaj.org/article/94dc7bd7a74e4b3eb7d90c0fbbe3567e
Autor:
Sidhartha Chaudhury, Monica Berrondo, Brian D Weitzner, Pravin Muthu, Hannah Bergman, Jeffrey J Gray
Publikováno v:
PLoS ONE, Vol 6, Iss 8, p e22477 (2011)
RosettaDock has been increasingly used in protein docking and design strategies in order to predict the structure of protein-protein interfaces. Here we test capabilities of RosettaDock 3.2, part of the newly developed Rosetta v3.2 modeling suite, ag
Externí odkaz:
https://doaj.org/article/79de8b6f186f4990a62789768cac8811
Autor:
Monica Berrondo, Varun Thvar
Publikováno v:
GEN Biotechnology. 2:33-35
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::6188ebbb1b59f1808f030187887c4bbf
https://doi.org/10.1089/genbio.2023.29080.mbe
https://doi.org/10.1089/genbio.2023.29080.mbe
Autor:
Eduardo Priego, S. Vince Parish, Jacob Byerly, Monica Berrondo, Naren Makkapati, Jordan Graves, Brenda Medellin
Publikováno v:
Antibodies
Antibodies, Vol 9, Iss 12, p 12 (2020)
Antibodies, Vol 9, Iss 12, p 12 (2020)
Driven by its successes across domains such as computer vision and natural language processing, deep learning has recently entered the field of biology by aiding in cellular image classification, finding genomic connections, and advancing drug discov
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6aaf9755bbaef4eecbac1dc9121f5483
https://doi.org/10.3390/antib9020012
https://doi.org/10.3390/antib9020012
Publikováno v:
Proteins: Structure, Function, and Bioinformatics. 82:1636-1645
This study was a part of the second antibody modeling assessment. The assessment is a blind study of the performance of multiple software programs used for antibody homology modeling. In the study, research groups were given sequences for 11 antibodi
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::f40c828aea6b9b58f366e66433620b59
https://doi.org/10.1002/prot.24595
https://doi.org/10.1002/prot.24595
Autor:
Supriya Pai, Alena M Calm, Heather Welsh, Candice Warner, Christien Kluwe, James Carney, Aroop Sircar, R. E. Hughes, Vlad Codrea, Jianqing Xu, Aleksandr E. Miklos, Patricia E. Buckley, Brian Kuhlman, Monica Berrondo, Andrew D. Ellington, George Georgiou, Bryan S. Der, Jeffrey J. Gray, Melody Zacharko
Publikováno v:
Chemistry & Biology. 19(4):449-455
Summary Mutation of surface residues to charged amino acids increases resistance to aggregation and can enable reversible unfolding. We have developed a protocol using the Rosetta computational design package that "supercharges" proteins while consid
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b2b8755377c997ee93da22b3947ba0c8
Autor:
Jeffrey J. Gray, Monica Berrondo
Publikováno v:
Proteins: Structure, Function, and Bioinformatics. 79:2844-2860
Point deletions in enzymes can vary in effect from negligible to complete loss of activity, however, these effects are not generally predictable. Deletions are widely observed in nature and often result in diseases such as cancer, cystic fibrosis, or
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::de03d2275efd038c7b1c16894475e62f
https://doi.org/10.1002/prot.23109
https://doi.org/10.1002/prot.23109
Autor:
Monica Berrondo, Aroop Sircar, Sidhartha Chaudhury, Jeffrey J. Gray, Krishna Praneeth Kilambi
Publikováno v:
Proteins: Structure, Function, and Bioinformatics. 78:3115-3123
In CAPRI rounds 13-19, the most native-like structure predicted by RosettaDock resulted in two high, one medium, and one acceptable accuracy model out of 13 targets. The current rounds of CAPRI were especially challenging with many unbound and homolo
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::f7182245ada63de2698ec8126a2c578b
https://doi.org/10.1002/prot.22765
https://doi.org/10.1002/prot.22765
Publikováno v:
Structure. 16(4):513-527
Multi-domain proteins continue to be a major challenge in protein structure prediction. Here, we present a Monte Carlo (MC) algorithm, implemented within Rosetta, to predict the structure of proteins in which one domain is inserted into another. Thre
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::028102a7eb8305d1c40c3ef5c80742ea
Publikováno v:
Journal of Physics: Condensed Matter. 16:S2145-S2148
Crozier et al (2001 Biophys. J. 81 3077) have simulated an electrically neutral but polar model channel under an applied field and found that there was a current of positive Na+ ions but there was no current of negative Cl− ions unless the concentr
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::c9aacc74085ff4a55fe3a462efc51942
https://doi.org/10.1088/0953-8984/16/22/013
https://doi.org/10.1088/0953-8984/16/22/013