Ecosyste.ms: Papers
An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.
Projects: cran: rosetta
https://packages.ecosyste.ms/registries/cran.r-project.org/packages/rosetta
Parallel Use of Statistical Packages in Teaching
11 versions
Latest release: over 1 year ago
484 downloads last month
Papers Mentioning rosetta 16
10.1107/S2059798319011471
Macromolecular structure determination using X-rays, neutrons and electrons: recent developments in <i>Phenix</i>Cited by: 3,483
Author(s): Dorothée Liebschner, Pavel V. Afonine, Matthew L. Baker, G. Bunkóczi, V.B. Chen, Tristan I. Croll, Bradley J. Hintze, Li Wei Hung, Swati Jain, Airlie J. McCoy, Nigel W. Moriarty, Robert D. Oeffner, Billy K. Poon, Michael G. Prisant, R.J. Read, Jane S. Richardson, David C. Richardson, Massimo Sammito, Oleg Sobolev, Duncan H. Stockwell, Thomas C. Terwilliger, Alexandre Urzhumtsev, Lizbeth L. Videau, Christopher J. Williams, Paul D. Adams
Software Mentions: 8
Published: about 5 years ago
10.1107/S1399004715009220
From bacterial to human dihydrouridine synthase: automated structure determinationCited by: 12
Author(s): Fiona Whelan, Huw T. Jenkins, Samuel C. Griffiths, Robert T. Byrne, E.J. Dodson, A.A. Antson
Software Mentions: 5
Published: over 9 years ago
10.1371/journal.pone.0066856
The PyRosetta Toolkit: A Graphical User Interface for the Rosetta Software SuiteCited by: 23
Author(s): Jared Adolf-Bryfogle, Roland L. Dunbrack
Software Mentions: 5
Published: over 11 years ago
10.1186/s13072-020-00355-7
N6-Adenosine methylation on mRNA is recognized by YTH2 domain protein of human malaria parasite Plasmodium falciparumCited by: 11
Author(s): Gayathri Govindaraju, Rajashekar Varma Kadumuri, Devadathan Valiyamangalath Sethumadhavan, C. A. Jabeena, Sreenivas Chavali, Arumugam Rajavelu
Software Mentions: 4
Published: about 4 years ago
10.3390/cells9081776
A Transposon Story: From TE Content to TE Dynamic Invasion of Drosophila Genomes Using the Single-Molecule Sequencing Technology from Oxford NanoporeCited by: 22
Author(s): Mourdas Mohamed, Nguyet Thi-Minh Dang, Yuki Ogyama, Nelly Burlet, Bruno Mugat, Matthieu Boulesteix, Vincent Mérel, Philippe Veber, Judit Salces-Ortiz, Dany Séverac, Alain Pélisson, Cristina Vieira, François Sabot, Marie Fablet, Séverine Chambeyron
Software Mentions: 4
Published: over 4 years ago
10.1186/1472-6807-8-46
A knowledge-based structure-discriminating function that requires only main-chain atom coordinatesCited by: 10
Author(s): Yoshihide Makino, Nobuhide Itoh
Software Mentions: 4
Published: almost 17 years ago
10.1371/journal.pcbi.1008061
Protein sequence optimization with a pairwise decomposable penalty for buried unsatisfied hydrogen bondsCited by: 16
Author(s): Brian Coventry, David Baker
Software Mentions: 4
Published: over 3 years ago
10.1007/s10969-012-9129-3
phenix.mr_rosetta: molecular replacement and model rebuilding with Phenix and RosettaCited by: 132
Author(s): Thomas C. Terwilliger, Frank DiMaio, R.J. Read, David Baker, G. Bunkóczi, Paul D. Adams, Ralf W. Grosse‐Kunstleve, Pavel V. Afonine, Nathaniel Echols
Software Mentions: 3
Published: over 12 years ago
10.1371/journal.pone.0020161
RosettaScripts: A Scripting Language Interface to the Rosetta Macromolecular Modeling SuiteCited by: 481
Author(s): Sarel J. Fleishman, Andrew Leaver‐Fay, Jacob E. Corn, Eva-Maria Strauch, Sagar D. Khare, Nobuyasu Koga, Justin Ashworth, Patricia Murphy, Florian Richter, Gordon Lemmon, Jens Meiler, David Baker
Software Mentions: 3
Published: over 13 years ago
10.1371/journal.pone.0240450
Assessing multiple score functions in Rosetta for drug discoveryCited by: 18
Author(s): Shannon Toney Smith, Jens Meiler
Software Mentions: 3
Published: about 4 years ago
10.1038/srep26847
Protein rethreading: A novel approach to protein designCited by: 4
Author(s): Sayeh Agah, Sandra Poulos, A Kosinsky Yu, Iga Kucharska, Salem Faham
Software Mentions: 3
Published: over 8 years ago
10.7554/eLife.54639
Approaching boiling point stability of an alcohol dehydrogenase through computationally-guided enzyme engineeringCited by: 29
Author(s): Friso S. Aalbers, Maximilian J. L. J. Fürst, S. Rovida, Miloš Trajković, J. Rubén Gómez Castellanos, Sebastian Bartsch, Andreas Vogel, Andrea Mattevi, Marco W. Fraaije
Software Mentions: 3
Published: over 4 years ago
10.1107/S0907444912015636
Improved crystallographic models through iterated local density-guided model deformation and reciprocal-space refinementCited by: 35
Author(s): Thomas C. Terwilliger, Randy J. Read, Paul D. Adams, Axel T. Brunger, Pavel V. Afonine, Ralf W. Grosse‐Kunstleve, Li Wei Hung
Software Mentions: 3
Published: over 12 years ago
10.1371/journal.pone.0019230
De Novo Enzyme Design Using Rosetta3Cited by: 260
Author(s): Florian Richter, Andrew Leaver‐Fay, Sagar D. Khare, Sinisa Bjelic, David C. Baker
Software Mentions: 2
Published: over 13 years ago
10.1107/S0907444913017770
Model morphing and sequence assignment after molecular replacementCited by: 33
Author(s): Thomas C. Terwilliger, Randy J. Read, Paul D. Adams, Axel T. Brunger, Pavel V. Afonine, Li Wei Hung
Software Mentions: 2
Published: about 11 years ago
10.1038/s41598-019-57279-w
Affinity-matured variants derived from nimotuzumab keep the original fine specificity and exhibit superior biological activityCited by: 6
Author(s): Yaima Tundidor, Luis F. Ponce, Lisset Chao, J Solozabal, Michael Hust, Stefan Dübel, Gertrudis Rojas
Software Mentions: 2
Published: almost 5 years ago