pypi: Fold | Projects | Ecosyste.ms: Papers

10.3390/cells10020322

Light-Dependent Translation Change of Arabidopsis psbA Correlates with RNA Structure Alterations at the Translation Initiation Region
Cited by: 7
Author(s): Piotr Gawroński, Christel Enroth, Peter Kindgren, Sebastian Marquardt, Stanisław Karpiński, Dario Leister, Poul Erik Jensen, Jeppe Vinther, Lars B. Scharff
Software Mentions: 11
Published: almost 4 years ago

10.3390/genes11040434

Fold-Change-Specific Enrichment Analysis (FSEA): Quantification of Transcriptional Response Magnitude for Functional Gene Groups
Cited by: 5
Author(s): Daniil S. Wiebe, N. A. Omelyanchuk, Aleksey M. Mukhin, Ivo Große, Sergey A. Lashin, Elena V. Zemlyanskaya, В. В. Миронова
Software Mentions: 6
Published: over 4 years ago

10.3390/plants9030323

Secondary Structure of Chloroplast mRNAs In Vivo and In Vitro
Cited by: 8
Author(s): Piotr Gawroński, Aleksandra Pałac, Lars B. Scharff
Software Mentions: 5
Published: over 4 years ago

10.1016/j.febslet.2015.11.030

Crystal structure of the Z-ring associated cell division protein ZapC from Escherichia coli
Cited by: 13
Author(s): Cristina Ortiz, Danguole Kureisaite-Ciziene, Florian Schmitz, Stephen H. McLaughlin, Miguel Vicente, Jan Löwe
Software Mentions: 3
Published: almost 9 years ago

10.1042/BSR20140088

Apo, Zn2+-bound and Mn2+-bound structures reveal ligand-binding properties of SitA from the pathogen <i>Staphylococcus pseudintermedius</i>
Cited by: 29
Author(s): Francesca Abate, E. Malito, Roberta Cozzi, Paola Lo Surdo, Domenico Maione, Matthew J. Bottomley
Software Mentions: 3
Published: almost 10 years ago

10.1111/j.1742-4658.2012.08597.x

A <i>S</i> ‐adenosylmethionine methyltransferase‐like domain within the essential, Fe‐S‐containing yeast protein Dre2
Cited by: 25
Author(s): Nicolás Soler, Constantin T. Craescu, Jacques Gallay, Yves-Michel Frapart, Daniel Mansuy, Bertrand Raynal, Giuseppe Baldacci, Annalisa Pastore, Meng‐Er Huang, Laurence Vernis
Software Mentions: 3
Published: over 12 years ago

10.1371/journal.pone.0138220

A Framework to Simplify Combined Sampling Strategies in Rosetta
Cited by: 10
Author(s): Justin R. Porter, Brian D. Weitzner, Oliver Lange
Software Mentions: 3
Published: about 9 years ago

10.1371/journal.pone.0020450

Modeling Symmetric Macromolecular Structures in Rosetta3
Cited by: 191
Author(s): Frank DiMaio, Andrew Leaver‐Fay, Philip Bradley, David Baker, Ingemar André
Software Mentions: 3
Published: over 13 years ago

10.1038/s41598-017-05657-7

Plasticity in the Oxidative Folding Pathway of the High Affinity Nerita Versicolor Carboxypeptidase Inhibitor (NvCI)
Cited by: 4
Author(s): Sebastián Esperante, Giovanni Covaleda, Sebastián A. Trejo, Sílvia Bronsoms, Francesc X. Aviles, Salvador Ventura
Software Mentions: 2
Published: over 7 years ago

10.1186/1471-2105-15-75

Structure and computational analysis of a novel protein with metallopeptidase-like and circularly permuted winged-helix-turn-helix domains reveals a possible role in modified polysaccharide biosynthesis
Cited by: 1
Author(s): Debanu Das, Alexey G. Murzin, Neil D. Rawlings, Alex Bateman, Penelope Coggill, Alex Bateman, Adam Godzik, L. Aravind
Software Mentions: 2
Published: over 10 years ago

10.3390/molecules25030690

Parallel Strategy Increases the Thermostability and Activity of Glutamate Decarboxylase
Cited by: 6
Author(s): Zhang Qingfei, Sheng Hu, Zhao Wang, Jun Huang, Jiaqi Mei, Lehe Mei
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pone.0049240

BCL::Fold - De Novo Prediction of Complex and Large Protein Topologies by Assembly of Secondary Structure Elements
Cited by: 43
Author(s): Mert Karakaş, Nils Woetzel, René Staritzbichler, Nathan Alexander, Brian E. Weiner, Jens Meiler
Software Mentions: 2
Published: about 12 years ago

10.1371/journal.pone.0130200

Discovery of Novel ncRNA Sequences in Multiple Genome Alignments on the Basis of Conserved and Stable Secondary Structures
Cited by: 26
Author(s): Yinghan Fu, Zhenjiang Zech Xu, Zhi John Lu, Shan Zhao, David H. Mathews
Software Mentions: 2
Published: over 9 years ago

10.3389/fbioe.2021.674211

Pepblock Builder VR – An Open-Source Tool for Gaming-Based Bio-Edutainment in Interactive Protein Design
Cited by: 6
Author(s): Venkata V. B. Yallapragada, Tao Xu, Sidney P. Walker, Sabin Tabirca, Mark Tangney
Software Mentions: 2
Published: over 3 years ago

10.1186/s12859-015-0706-x

Multi-objective optimization for RNA design with multiple target secondary structures
Cited by: 28
Author(s): Akito Taneda
Software Mentions: 2
Published: about 9 years ago

10.1186/1471-2105-11-129

RNAstructure: software for RNA secondary structure prediction and analysis
Cited by: 1,489
Author(s): Jessica S. Reuter, David H. Mathews
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0098655

Comprehensive Secondary Structure Elucidation of Four Genera of the Family Pospiviroidae
Cited by: 65
Author(s): Tamara Giguère, Charith Raj Adkar-Purushothama, Jean‐Pierre Perreault
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0177866

Membrane protein contact and structure prediction using co-evolution in conjunction with machine learning
Cited by: 3
Author(s): Pedro L. Teixeira, Jeff L. Mendenhall, Sten Heinze, Brian E. Weiner, Marcin J. Skwark, Jens Meiler
Software Mentions: 1
Published: over 7 years ago

10.1080/22221751.2020.1719902

Genomic characterization of the 2019 novel human-pathogenic coronavirus isolated from a patient with atypical pneumonia after visiting Wuhan
Cited by: 2,289
Author(s): Jasper Fuk‐Woo Chan, Kin Hang Kok, Zheng Zhu, Hin Chu, Kelvin Kai-Wang To, Shuofeng Yuan, Kwok Yung Yuen
Software Mentions: 1
Published: almost 5 years ago

10.1371/journal.pcbi.1005827

Base pair probability estimates improve the prediction accuracy of RNA non-canonical base pairs
Cited by: 26
Author(s): Michael F. Sloma, David H. Mathews
Software Mentions: 1
Published: about 7 years ago

10.1186/s12864-017-4289-y

Discovering the potential of S. clavuligerus for bioactive compound production: cross-talk between the chromosome and the pSCL4 megaplasmid
Cited by: 12
Author(s): Rubén Álvarez-Álvarez, Yolanda Martínez-Burgo, Antonio Rodrı́guez-Garcı́a, Paloma Liras
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0182536

Classification of the Pospiviroidae based on their structural hallmarks
Cited by: 19
Author(s): Tamara Giguère, Jean‐Pierre Perreault
Software Mentions: 1
Published: over 7 years ago

10.1371/journal.pone.0038793

Specific Evolution of F1-Like ATPases in Mycoplasmas
Cited by: 29
Author(s): Laure Béven, Claire Charenton, Alain Dautant, Guillaume Bouyssou, Fabien Labroussaa, Anna Sköllermo, Anja Bondke Persson, Alain Blanchard, Pascal Sirand‐Pugnet
Software Mentions: 1
Published: over 12 years ago

10.1038/srep22871

Structure of ThiM from Vitamin B1 biosynthetic pathway of Staphylococcus aureus – Insights into a novel pro-drug approach addressing MRSA infections
Cited by: 6
Author(s): Julia Drebes, Michael Kunz, Björn Windshügel, Alexey Kikhney, Ingrid Müller, Raphael J. Eberle, Dominik Oberthür, Huaixing Cang, Dmitri I. Svergun, Markus Perbandt, Christian Betzel, Carsten Wrenger
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0152517

CASP11 – An Evaluation of a Modular BCL::Fold-Based Protein Structure Prediction Pipeline
Cited by: 15
Author(s): Anastasia Fischer, Sten Heinze, Daniel K. Putnam, Bian Li, James C. Pino, Yan Xia, Carlos F. López, Jens Meiler
Software Mentions: 1
Published: over 8 years ago

Ecosyste.ms: Papers

Projects: pypi: Fold

Papers Mentioning Fold 26