Year |
Citation |
Score |
2020 |
Leman JK, Weitzner BD, Lewis SM, Adolf-Bryfogle J, Alam N, Alford RF, Aprahamian M, Baker D, Barlow KA, Barth P, Basanta B, Bender BJ, Blacklock K, Bonet J, Boyken SE, ... ... Bystroff C, et al. Macromolecular modeling and design in Rosetta: recent methods and frameworks. Nature Methods. PMID 32483333 DOI: 10.1038/S41592-020-0848-2 |
0.633 |
|
2020 |
Koehler Leman J, Weitzner BD, Renfrew PD, Lewis SM, Moretti R, Watkins AM, Mulligan VK, Lyskov S, Adolf-Bryfogle J, Labonte JW, Krys J, Bystroff C, Schief W, Gront D, et al. Better together: Elements of successful scientific software development in a distributed collaborative community. Plos Computational Biology. 16: e1007507. PMID 32365137 DOI: 10.1371/Journal.Pcbi.1007507 |
0.75 |
|
2020 |
Leman JK, Weitzner BD, Renfrew PD, Lewis SM, Moretti R, Watkins AM, Mulligan VK, Lyskov S, Adolf-Bryfogle J, Labonte JW, Krys J, Bystroff C, Schief W, Gront D, Schueler-Furman O, et al. Members of the RosettaCommons Consortium. Plos Computational Biology. DOI: 10.1371/Journal.Pcbi.1007507.S009 |
0.71 |
|
2020 |
Leman JK, Weitzner BD, Renfrew PD, Lewis SM, Moretti R, Watkins AM, Mulligan VK, Lyskov S, Adolf-Bryfogle J, Labonte JW, Krys J, Bystroff C, Schief W, Gront D, Schueler-Furman O, et al. Details of Remaining Collective Challenges. Plos Computational Biology. DOI: 10.1371/Journal.Pcbi.1007507.S008 |
0.716 |
|
2020 |
Leman JK, Weitzner BD, Renfrew PD, Lewis SM, Moretti R, Watkins AM, Mulligan VK, Lyskov S, Adolf-Bryfogle J, Labonte JW, Krys J, Bystroff C, Schief W, Gront D, Schueler-Furman O, et al. Commercial spin-off companies from the Rosetta community. Plos Computational Biology. DOI: 10.1371/Journal.Pcbi.1007507.S007 |
0.723 |
|
2020 |
Leman JK, Weitzner BD, Renfrew PD, Lewis SM, Moretti R, Watkins AM, Mulligan VK, Lyskov S, Adolf-Bryfogle J, Labonte JW, Krys J, Bystroff C, Schief W, Gront D, Schueler-Furman O, et al. Values Statement: Equality and Inclusion in the RosettaCommons. Plos Computational Biology. DOI: 10.1371/Journal.Pcbi.1007507.S005 |
0.697 |
|
2020 |
Leman JK, Weitzner BD, Renfrew PD, Lewis SM, Moretti R, Watkins AM, Mulligan VK, Lyskov S, Adolf-Bryfogle J, Labonte JW, Krys J, Bystroff C, Schief W, Gront D, Schueler-Furman O, et al. Descriptions of the Rosetta board positions. Plos Computational Biology. DOI: 10.1371/Journal.Pcbi.1007507.S004 |
0.708 |
|
2020 |
Leman JK, Weitzner BD, Renfrew PD, Lewis SM, Moretti R, Watkins AM, Mulligan VK, Lyskov S, Adolf-Bryfogle J, Labonte JW, Krys J, Bystroff C, Schief W, Gront D, Schueler-Furman O, et al. Typical development workflow in the Rosetta community. Plos Computational Biology. DOI: 10.1371/Journal.Pcbi.1007507.S003 |
0.743 |
|
2020 |
Leman JK, Weitzner BD, Renfrew PD, Lewis SM, Moretti R, Watkins AM, Mulligan VK, Lyskov S, Adolf-Bryfogle J, Labonte JW, Krys J, Bystroff C, Schief W, Gront D, Schueler-Furman O, et al. Specific tests for Rosetta running on our automated testing framework. Plos Computational Biology. DOI: 10.1371/Journal.Pcbi.1007507.S002 |
0.712 |
|
2020 |
Leman JK, Weitzner BD, Renfrew PD, Lewis SM, Moretti R, Watkins AM, Mulligan VK, Lyskov S, Adolf-Bryfogle J, Labonte JW, Krys J, Bystroff C, Schief W, Gront D, Schueler-Furman O, et al. Growth in Rosetta PIs and conference attendees. Plos Computational Biology. DOI: 10.1371/Journal.Pcbi.1007507.S001 |
0.7 |
|
2015 |
Shirke AN, Basore D, Butterfoss GL, Bonneau R, Bystroff C, Gross RA. Towards rational thermostabilization of Aspergillus oryzae Cutinase: Insights into catalytic and structural stability. Proteins. PMID 26522152 DOI: 10.1002/Prot.24955 |
0.495 |
|
2015 |
Schenkelberg CD, Bystroff C. InteractiveROSETTA: a graphical user interface for the PyRosetta protein modeling suite. Bioinformatics (Oxford, England). PMID 26315900 DOI: 10.1093/Bioinformatics/Btv492 |
0.331 |
|
2013 |
Xia Y, DiPrimio N, Keppel TR, Vo B, Fraser K, Battaile KP, Egan C, Bystroff C, Lovell S, Weis DD, Anderson JC, Karanicolas J. The designability of protein switches by chemical rescue of structure: mechanisms of inactivation and reactivation. Journal of the American Chemical Society. 135: 18840-9. PMID 24313858 DOI: 10.1021/Ja407644B |
0.605 |
|
2006 |
Huang YM, Bystroff C. Improved pairwise alignments of proteins in the Twilight Zone using local structure predictions. Bioinformatics (Oxford, England). 22: 413-22. PMID 16352653 DOI: 10.1093/Bioinformatics/Bti828 |
0.3 |
|
2004 |
Bystroff C, Shao Y, Yuan X. Five hierarchical levels of sequence-structure correlation in proteins. Applied Bioinformatics. 3: 97-104. PMID 15693735 DOI: 10.2165/00822942-200403020-00004 |
0.314 |
|
2003 |
Yuan X, Shao Y, Bystroff C. Ab initio protein structure prediction using pathway models. Comparative and Functional Genomics. 4: 397-401. PMID 18629080 DOI: 10.1002/Cfg.305 |
0.307 |
|
2000 |
Bystroff C, Thorsson V, Baker D. HMMSTR: a hidden Markov model for local sequence-structure correlations in proteins. Journal of Molecular Biology. 301: 173-90. PMID 10926500 DOI: 10.1006/Jmbi.2000.3837 |
0.672 |
|
2000 |
Thayer EC, Bystroff C, Baker D. Detection of protein coding sequences using a mixture model for local protein amino acid sequence. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 7: 317-27. PMID 10890405 DOI: 10.1089/10665270050081559 |
0.364 |
|
1999 |
Simons KT, Ruczinski I, Kooperberg C, Fox BA, Bystroff C, Baker D. Improved recognition of native-like protein structures using a combination of sequence-dependent and sequence-independent features of proteins. Proteins. 34: 82-95. PMID 10336385 DOI: 10.1002/(Sici)1097-0134(19990101)34:1<82::Aid-Prot7>3.0.Co;2-A |
0.377 |
|
1998 |
Yi Q, Bystroff C, Rajagopal P, Klevit RE, Baker D. Prediction and structural characterization of an independently folding substructure in the src SH3 domain. Journal of Molecular Biology. 283: 293-300. PMID 9761691 DOI: 10.1006/Jmbi.1998.2072 |
0.36 |
|
1998 |
Bystroff C, Baker D. Prediction of local structure in proteins using a library of sequence-structure motifs. Journal of Molecular Biology. 281: 565-77. PMID 9698570 DOI: 10.1006/Jmbi.1998.1943 |
0.389 |
|
1997 |
Bystroff C, Baker D. Blind predictions of local protein structure in CASP2 targets using the I-sites library. Proteins. 167-71. PMID 9485508 DOI: 10.1002/(Sici)1097-0134(1997)1+<167::Aid-Prot21>3.0.Co;2-L |
0.392 |
|
1997 |
Han KF, Bystroff C, Baker D. Three-dimensional structures and contexts associated with recurrent amino acid sequence patterns. Protein Science : a Publication of the Protein Society. 6: 1587-90. PMID 9232660 DOI: 10.1002/Pro.5560060723 |
0.36 |
|
1996 |
Bystroff C, Simons KT, Han KF, Baker D. Local sequence-structure correlations in proteins. Current Opinion in Biotechnology. 7: 417-21. PMID 8768900 DOI: 10.1016/S0958-1669(96)80117-0 |
0.373 |
|
1993 |
Bystroff C, Baker D, Fletterick RJ, Agard DA. PRISM: application to the solution of two protein structures. Acta Crystallographica. Section D, Biological Crystallography. 49: 440-8. PMID 15299503 DOI: 10.1107/S0907444993004020 |
0.53 |
|
1993 |
Baker D, Bystroff C, Fletterick RJ, Agard DA. PRISM: topologically constrained phased refinement for macromolecular crystallography. Acta Crystallographica. Section D, Biological Crystallography. 49: 429-39. PMID 15299502 DOI: 10.1107/S0907444993004032 |
0.528 |
|
1993 |
Baker D, Bystroff C, Krukowski A, Wilson C, Agard D. Connectivity and the phase problem in macromolecular crystallography Acta Crystallographica Section a Foundations of Crystallography. 49: c50-c50. DOI: 10.1107/S0108767378098566 |
0.427 |
|
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