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: pypi: modeller
https://packages.ecosyste.ms/registries/pypi.org/packages/modeller
create efficent models starting from json schema
23 versions
Latest release: over 5 years ago
2 dependent packages
891 downloads last month
Papers Mentioning modeller 33
10.1111/acel.12296
Proteins in aggregates functionally impact multiple neurodegenerative disease models by forming proteasome‐blocking complexesCited by: 51
Author(s): Srinivas Ayyadevara, Meenakshisundaram Balasubramaniam, Yuan Gao, Li‐Rong Yu, Ramani Alla, Robert Shmookler Reis
Software Mentions: 5
Published: almost 10 years ago
10.1371/journal.pone.0182056
Dynamics and asymmetry in the dimer of the norovirus major capsid proteinCited by: 8
Author(s): Thibault Tubiana, Yves Boulard, Stéphane Bressanelli
Software Mentions: 4
Published: over 7 years ago
10.1099/mic.0.2007/015479-0
Variation in the Neisseria lactamica porin, and its relationship to meningococcal PorBCited by: 18
Author(s): Julia S. Bennett, Martin J. Callaghan, Jeremy P. Derrick, Martin C. J. Maiden
Software Mentions: 3
Published: over 16 years ago
10.1099/mgen.0.000247
'Candidatus Ornithobacterium hominis': insights gained from draft genomes obtained from nasopharyngeal swabsCited by: 15
Author(s): Susannah J. Salter, Paul D. Scott, Andrew J. Page, Alan S. Tracey, Marcus C. de Goffau, Claire Cormie, Bernardo Ochoa‐Montaño, Clare Ling, Jiraporn Tangmanakit, Paul Turner, Julian Parkhill
Software Mentions: 3
Published: almost 6 years ago
10.1002/2211-5463.12542
Glyceraldehyde‐3‐phosphate dehydrogenase from<i>Citrobacter</i>sp. S‐77 is post‐translationally modified by CoA (protein CoAlation) under oxidative stressCited by: 13
Author(s): Kohei Tsuji, Ki Seok Yoon, Seiji Ogo
Software Mentions: 3
Published: almost 6 years ago
10.1371/journal.pone.0042612
FASCAPLYSIN as a Specific Inhibitor for CDK4: Insights from Molecular ModellingCited by: 41
Author(s): Muhammad Shafiq, Thomas Steinbrecher, Ralf Schmid
Software Mentions: 2
Published: over 12 years ago
10.1371/journal.pone.0061953
Crystal Structure of an Anti-Ang2 CrossFab Demonstrates Complete Structural and Functional Integrity of the Variable DomainCited by: 29
Author(s): Sebastian Fenn, Christian Schiller, Julia J. Griese, Harald Duerr, Sabine Imhof-Jung, Christian Gassner, Joerg Moelleken, Jörg T. Regula, W. Schaefer, Markus Thomas, Christian Klein, Karl‐Peter Hopfner, Hubert Kettenberger
Software Mentions: 2
Published: over 11 years ago
10.1038/s41598-017-16842-z
An engineered opsin monomer scrambles phospholipidsCited by: 12
Author(s): Kalpana Pandey, Birgit Ploier, Michael A. Goren, Joshua Levitz, George Khelashvili, Anant K. Menon
Software Mentions: 2
Published: almost 7 years ago
10.1038/s41598-020-65288-3
Molecular Basis of Differential Stability and Temperature Sensitivity of ZIKA versus Dengue Virus Protein ShellsCited by: 7
Author(s): Chinmai Pindi, Venkat R. Chirasani, Mohammad Homaidur Rahman, Mohd Ahsan, Prasanna D. Revanasiddappa, Sanjib Senapati
Software Mentions: 2
Published: over 4 years ago
10.1111/j.1365-2958.2008.06508.x
Analysis of structure and function of the giant protein Pf332 in<i>Plasmodium falciparum</i>Cited by: 38
Author(s): Anthony N. Hodder, Alexander G. Maier, Melanie Rug, Monica Brown, Mirja Hommel, Ivan Pantic, Marina Puig-de-Morales-Marinkovic, Brian J. Smith, Tony Triglia, James G. Beeson, Alan F. Cowman
Software Mentions: 2
Published: almost 16 years ago
10.1371/journal.pone.0243305
New sulphonamide pyrolidine carboxamide derivatives: Synthesis, molecular docking, antiplasmodial and antioxidant activitiesCited by: 6
Author(s): Efeturi A. Onoabedje, Akachukwu Ibezim, Uchechukwu C. Okoro, Sanjay Batra
Software Mentions: 2
Published: over 3 years ago
10.1186/s12862-021-01819-4
Searching for signatures of positive selection in cytochrome b gene associated with subterranean lifestyle in fast-evolving arvicolines (Arvicolinae, Cricetidae, Rodentia)Cited by: 5
Author(s): Olga Bondareva, Nadezhda A. Potapova, Kirill A. Konovalov, Tatyana V. Petrova, Natalia I. Abramson
Software Mentions: 2
Published: over 3 years ago
10.1098/rsob.150005
Three-dimensional topology of the SMC2/SMC4 subcomplex from chicken condensin I revealed by cross-linking and molecular modellingCited by: 46
Author(s): Helena Barysz, Ji Hun Kim, Zhuo A. Chen, Damien F. Hudson, Juri Rappsilber, Dietlind L. Gerloff, William C. Earnshaw
Software Mentions: 2
Published: almost 10 years ago
10.1111/febs.14973
Light‐induced complex formation of bacteriophytochrome<i>Rp</i>BphP1 and gene repressor<i>Rp</i>PpsR2 probed by SAXSCited by: 4
Author(s): Miroslav Z. Papiz, Dom Bellini, Katherine J. Evans, J. Günter Grossmann, Tony Fordham‐Skelton
Software Mentions: 2
Published: over 5 years ago
10.1002/2211-5463.12069
Understanding the dynamics of monomeric, dimeric, and tetrameric α‐synuclein structures in waterCited by: 14
Author(s): Jonathan Y. Mane, Maria Stepanova
Software Mentions: 2
Published: over 8 years ago
10.1038/s41598-017-08062-2
Targeting P-glycoprotein: Investigation of piperine analogs for overcoming drug resistance in cancerCited by: 73
Author(s): Safiulla Basha Syed, Hemant Arya, I‐Hsuan Fu, Teng‐Kuang Yeh, Latha Periyasamy, Hsing‐Pang Hsieh, Mohane Selvaraj Coumar
Software Mentions: 1
Published: over 7 years ago
10.1155/2015/424860
Progress and Challenges toward the Development of Vaccines against Avian Infectious BronchitisCited by: 97
Author(s): Faruku Bande, Siti Suri Arshad, Mohd Hair Bejo, Hassan Moeini, Abdul Rahman Omar
Software Mentions: 1
Published: almost 10 years ago
10.7554/eLife.59026
Probing the ionotropic activity of glutamate GluD2 receptor in HEK cells with genetically-engineered photopharmacologyCited by: 14
Author(s): Damien Lemoine, Sarah Mondoloni, Jérôme Tange, Bertrand Lambolez, Philippe Fauré, Antoine Taly, Ludovic Tricoire, Alexandre Mourot
Software Mentions: 1
Published: about 4 years ago
10.1098/rsob.140175
MHJ_0461 is a multifunctional leucine aminopeptidase on the surface of <i>Mycoplasma hyopneumoniae</i>Cited by: 51
Author(s): Veronica M. Jarocki, Jerran Santos, Jessica L. Tacchi, Benjamin B. A. Raymond, Ania T. Deutscher, Cheryl Jenkins, Matthew P. Padula, Steven P. Djordjevic
Software Mentions: 1
Published: almost 10 years ago
10.1371/journal.pone.0136692
Characterization of Peptidyl-Prolyl Cis-Trans Isomerase- and Calmodulin-Binding Activity of a Cytosolic Arabidopsis thaliana Cyclophilin AtCyp19-3Cited by: 27
Author(s): Gundeep Kaur, Sant P. Singh, Harpreet Singh, Mrinalini Chawla, Tanima Dutta, Harsimran Kaur, Kyle W. Bender, Wayne A. Snedden, Sanjay Kapoor, Ashwani Pareek, Prabhjeet Singh
Software Mentions: 1
Published: about 9 years ago
10.1186/s12900-018-0095-2
Comparative analysis of interactions between aryl hydrocarbon receptor ligand binding domain with its ligands: a computational studyCited by: 15
Author(s): Kumaraswamy Naidu Chitrala, Xiaoming Yang, Mitzi Nagarkatti, Mitzi Nagarkatti
Software Mentions: 1
Published: almost 6 years ago
10.6026/97320630015838
Molecular modelling and docking analysis of pleurocidin (an antimicrobial peptide) like peptides with enterotoxin H from Klebsilla pneumoniaCited by: 1
Author(s): Giridharan Bupesh, M. Nandini, Sakthivel Vasanth, T. Vijayakumar, C. Amutha, K Prabhu, Vellingiri Balachnadar
Software Mentions: 1
Published: almost 5 years ago
10.22099/mbrc.2019.34198.1420
In silico analysis for determining the deleterious nonsynonymous single nucleotide polymorphisms of BRCA genes.Cited by: 6
Author(s): Fatemeh Yadegari, Keivan Majidzadeh
Software Mentions: 1
Published: almost 5 years ago
10.3390/molecules26195869
Searching Anti-Zika Virus Activity in 1H-1,2,3-Triazole Based CompoundsCited by: 4
Author(s): Willyenne Marília Dantas, Valentina Nascimento Melo de Oliveira, Diogo A L Santos, Gustavo Seabra, Prem Prakash Sharma, Brijesh Rathi, Lindomar Pena, Ronaldo N. de Oliveira
Software Mentions: 1
Published: about 3 years ago
10.1371/journal.pcbi.1006229
Dopamine transporter oligomerization involves the scaffold domain, but spares the bundle domainCited by: 20
Author(s): Kumaresan Jayaraman, Alex N. Morley, Dániel Szöllősi, Tsjerk A. Wassenaar, Harald H. Sitte, Thomas Stockner
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pone.0032559
Discovery of Defense- and Neuropeptides in Social Ants by Genome-MiningCited by: 59
Author(s): Christian W. Gruber, Markus Muttenthaler
Software Mentions: 1
Published: over 12 years ago
10.1371/journal.pone.0087632
Seven N-terminal Residues of a Thermophilic Xylanase Are Sufficient to Confer Hyperthermostability on Its Mesophilic CounterpartCited by: 19
Author(s): Shan Zhang, Yong‐Xing He, Haiying Yu, Zhiyang Dong
Software Mentions: 1
Published: almost 11 years ago
10.1002/acn3.50887
Biophysical characterization and modulation of Transthyretin Ala97SerCited by: 10
Author(s): Yo‐Tsen Liu, Yueh‐Jung Yen, Frans Ricardo, Yoon Hee Chang, Peng Wu, Shing‐Jong Huang, Kon‐Ping Lin, Tsyr‐Yan Yu
Software Mentions: 1
Published: about 5 years ago
10.3390/antiox9090840
Effects of Moringa oleifera Leaf Extract on Diabetes-Induced Alterations in Paraoxonase 1 and Catalase in Rats Analyzed through Progress Kinetic and Blind DockingCited by: 7
Author(s): Erick Sierra-Campos, Mónica Valdez-Solana, Claudia Avitia-Domínguez, Mara Ibeth Campos-Almazán, Ismael Flores-Molina, Guadalupe García‐Arenas, Alfredo Téllez‐Valencia
Software Mentions: 1
Published: about 4 years ago
10.1111/febs.12097
Tetrameric structure of <scp>SUR2B</scp> revealed by electron microscopy of oriented single particlesCited by: 10
Author(s): Constantina Fotinou, Jussi Aittoniemi, Heidi de Wet, Ange Polidori, Bernard Pucci, Mark S. P. Sansom, Catherine Vénien-Bryan, Frances M. Ashcroft
Software Mentions: 1
Published: almost 12 years ago
10.1038/srep44906
Vertebrate Cryptochromes are Vestigial FlavoproteinsCited by: 76
Author(s): Roger Jan Kutta, Nataliya Archipowa, Linus O. Johannissen, Alex R. Jones, Nigel S. Scrutton
Software Mentions: 1
Published: over 7 years ago
10.1038/srep45211
Novel 1, 4-dihydropyridines for L-type calcium channel as antagonists for cadmium toxicityCited by: 26
Author(s): Madhu Sudhana Saddala, Ramesh Kandimalla, Jangampalli Adi Pradeepkiran, Sainath Sri Bhashyam, Usha Rani Asupatri
Software Mentions: 1
Published: over 7 years ago