cran: ProFit | Projects | Ecosyste.ms: Papers

10.7554/eLife.35854

GABA, not BOLD, reveals dissociable learning-dependent plasticity mechanisms in the human brain
Cited by: 36
Author(s): Polytimi Frangou, Marta Correia, Zoe Kourtzi
Software Mentions: 5
Published: about 6 years ago

10.1002/2211-5463.12259

Structural flexibility of human α-dystroglycan
Cited by: 12
Author(s): Sonia Covaceuszach, Manuela Bozzi, Maria Giulia Bigotti, Francesca Sciandra, Petr V. Konarev, Andrea Brancaccio, Alberto Cassetta
Software Mentions: 5
Published: over 7 years ago

10.1107/S2059798317000031

Crystal structure and RNA-binding properties of an Hfq homolog from the deep-branching Aquificae: conservation of the lateral RNA-binding mode
Cited by: 18
Author(s): Kimberly A. Stanek, Jennifer Patterson-West, Peter S. Randolph, Cameron Mura
Software Mentions: 5
Published: over 7 years ago

10.1002/mgg3.1106

Structural analysis of pathogenic missense mutations in GABRA2 and identification of a novel de novo variant in the desensitization gate
Cited by: 7
Author(s): Alba Sanchis‐Juan, Marcia Anahí Hasenahuer, James Alexander Baker, Amy McTague, Katy Barwick, Manju A. Kurian, Sofia Duarte, Nihr BioResource, Keren Carss, Janet M. Thornton, F. Lucy Raymond
Software Mentions: 5
Published: over 4 years ago

10.1128/mSphere.00298-16

Human Norovirus Aptamer Exhibits High Degree of Target Conformation-Dependent Binding Similar to That of Receptors and Discriminates Particle Functionality
Cited by: 18
Author(s): Matthew D. Moore, Benjamin G. Bobay, Brittany S. Mertens, Lee‐Ann Jaykus
Software Mentions: 4
Published: almost 8 years ago

10.1007/s10822-017-0049-y

Performance of HADDOCK and a simple contact-based protein–ligand binding affinity predictor in the D3R Grand Challenge 2
Cited by: 94
Author(s): Zeynep Kurkcuoglu, Panagiotis I. Koukos, Nevia Citro, Mikaël Trellet, João P. G. L. M. Rodrigues, Irina S. Moreira, Jorge Roel‐Touris, Adrien Melquiond, Cunliang Geng, Jörg Schaarschmidt, Xue Li, Anna Vangone, Alexandre M. J. J. Bonvin
Software Mentions: 4
Published: over 7 years ago

10.7554/eLife.16761

Origin of a folded repeat protein from an intrinsically disordered ancestor
Cited by: 40
Author(s): Hongbo Zhu, Edgardo Sepúlveda, M.D. Hartmann, Manjunatha Kogenaru, Astrid Ursinus, Eva Sulz, R. Albrecht, Murray Coles, Jörg Martin, Andrei N. Lupas
Software Mentions: 4
Published: about 8 years ago

10.15252/embj.2019104185

Timeless couples G‐quadruplex detection with processing by <scp>DDX</scp> 11 helicase during <scp>DNA</scp> replication
Cited by: 42
Author(s): Letícia Koch Lerner, Sandro Holzer, M.L. Kilkenny, Saša Šviković, Pierre Murat, Davide Schiavone, Cara Bernadette Eldridge, Alice Bittleston, Joseph D. Maman, Dana Branzei, Katherine Stott, Luca Pellegrini, Julian E. Sale
Software Mentions: 4
Published: over 4 years ago

10.1093/bioinformatics/btx352

ISAMBARD: an open-source computational environment for biomolecular analysis, modelling and design
Cited by: 39
Author(s): Christopher W. Wood, Jack W. Heal, Andrew Thomson, Gail J. Bartlett, Amaurys Ávila Ibarra, R.L. Brady, Richard B. Sessions, Derek N. Woolfson
Software Mentions: 4
Published: over 7 years ago

10.7554/eLife.28842

Cyclic di-GMP differentially tunes a bacterial flagellar motor through a novel class of CheY-like regulators
Cited by: 59
Author(s): Jutta Nesper, Isabelle Hug, Setsu Kato, Chee-Seng Hee, Judith Habazettl, Pablo Manfredi, Stephan Grzesiek, Tilman Schirmer, Thierry Emonet, Urs Jenal
Software Mentions: 3
Published: about 7 years ago

10.1038/s41598-017-03121-0

Echo-Planar J-resolved Spectroscopic Imaging using Dual Read-outs: Implementation and Quantitation of Human Brain Metabolites
Cited by: 4
Author(s): Manoj K. Sarma, Rajakumar Nagarajan, Zohaib Iqbal, Paul M. Macey, M. Albert Thomas
Software Mentions: 3
Published: over 7 years ago

10.1007/s10822-018-0148-4

Protein–ligand pose and affinity prediction: Lessons from D3R Grand Challenge 3
Cited by: 19
Author(s): Panagiotis I. Koukos, Xue Li, Alexandre M. J. J. Bonvin
Software Mentions: 3
Published: over 6 years ago

10.3389/fgene.2019.00508

F8 Inversions at Xq28 Causing Hemophilia A Are Associated With Specific Methylation Changes: Implication for Molecular Epigenetic Diagnosis
Cited by: 14
Author(s): Muhammad Ahmer Jamil, Amit Sharma, Nicole Nuesgen, Behnaz Pezeshkpoor, André Heimbach, A. Pavlova, Johannes Oldenburg, Osman El‐Maarri
Software Mentions: 3
Published: over 5 years ago

10.1126/sciadv.aaq0762

Structures of monomeric and oligomeric forms of the Toxoplasma gondii perforin-like protein 1
Cited by: 28
Author(s): Ni Tien, Sophie I. Williams, Saša Rezelj, Gregor Anderluh, K. Harlos, Phillip J. Stansfeld, Robert J.C. Gilbert
Software Mentions: 3
Published: over 6 years ago

10.1371/journal.pcbi.1004926

Novel Computational Protocols for Functionally Classifying and Characterising Serine Beta-Lactamases
Cited by: 25
Author(s): David A. Lee, Sayoni Das, Natalie L. Dawson, Dragana Dobrijevic, John M. Ward, Christine A. Orengo
Software Mentions: 3
Published: over 8 years ago

10.1186/s13321-017-0254-7

HawkRank: a new scoring function for protein–protein docking based on weighted energy terms
Cited by: 45
Author(s): Ting Feng, Chen Fu, Yu Kang, Huiyong Sun, Hui Liu, Dan Li, Feng Zhu, Tingjun Hou
Software Mentions: 3
Published: almost 7 years ago

10.3389/fmolb.2019.00102

MARTINI-Based Protein-DNA Coarse-Grained HADDOCKing
Cited by: 25
Author(s): Rodrigo Vargas Honorato, Jorge Roel‐Touris, Alexandre Bonvin
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms22189771

Insights into Comparative Modeling of VHH Domains
Cited by: 3
Author(s): Akhila Melarkode Vattekatte, Fréderic Cadet, Jean‐Christophe Gelly, Alexandre G. de Brevern
Software Mentions: 2
Published: about 3 years ago

10.1098/rsob.160053

Structure of astrotactin-2: a conserved vertebrate-specific and perforin-like membrane protein involved in neuronal development
Cited by: 28
Author(s): Ni Tien, K. Harlos, Robert J.C. Gilbert
Software Mentions: 2
Published: over 8 years ago

10.7717/peerj.8408

Discrete analysis of camelid variable domains: sequences, structures, and in-silico structure prediction
Cited by: 14
Author(s): Akhila Melarkode Vattekatte, Nicolas K. Shinada, Tarun Jai Raj Narwani, Floriane Noël, Olivier Bertrand, Jean-Philippe Meyniel, Alain Malpertuy, Jean‐Christophe Gelly, Fréderic Cadet, Alexandre G. de Brevern
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0046838

Fluorescence of Alexa Fluor Dye Tracks Protein Folding
Cited by: 25
Author(s): Simon Lindhoud, Adrie H. Westphal, Antonie J. W. G. Visser, Jan Willem Borst, C.P.M. van Mierlo
Software Mentions: 2
Published: about 12 years ago

10.1371/journal.pone.0175723

Soaking suggests “alternative facts”: Only co-crystallization discloses major ligand-induced interface rearrangements of a homodimeric tRNA-binding protein indicating a novel mode-of-inhibition
Cited by: 31
Author(s): F.R. Ehrmann, Johann Stojko, A. Metz, François Debaene, Luzi Jakob Barandun, A. Heine, François Diederich, Sarah Cianférani, Klaus Reuter, G. Klebe
Software Mentions: 2
Published: over 7 years ago

10.3390/pharmaceutics12050450

Recombinant Protein-Based Nanoparticles: Elucidating Their Inflammatory Effects In Vivo and Their Potential as a New Therapeutic Format
Cited by: 8
Author(s): Laia Gifre-Renom, Estefanía Ugarte-Berzal, Erik Martens, Lise Boon, Olivia Cano‐Garrido, Esther Martínez-Núñez, Teresa Luque, Ramon Roca-Pinilla, Óscar Conchillo-Solé, Neus Ferrer-Miralles, Antonio Villaverde, Elena García‐Fruitós, Anna Arı́s
Software Mentions: 2
Published: over 4 years ago

10.1186/1471-2105-9-556

The meaning of alignment: lessons from structural diversity
Cited by: 12
Author(s): Walter Pirovano, K. Anton Feenstra, Jaap Heringa
Software Mentions: 2
Published: almost 16 years ago

10.1186/1471-2105-12-247

Dissecting protein loops with a statistical scalpel suggests a functional implication of some structural motifs
Cited by: 7
Author(s): Leslie Regad, Juliette Martin, Anne-Claude Camproux
Software Mentions: 2
Published: over 13 years ago

10.1038/srep44341

Characterization of long and stable de novo single alpha-helix domains provides novel insight into their stability
Cited by: 36
Author(s): Marcin Wolny, Matthew Batchelor, Gail J. Bartlett, Emily G. Baker, Marta Kurzawa, Peter J. Knight, Lorna Dougan, Derek N. Woolfson, Emanuele Paci, Michelle Peckham
Software Mentions: 2
Published: over 7 years ago

10.1093/database/bat048

DoSA: Database of Structural Alignments
Cited by: 2
Author(s): Swapnil Mahajan, Garima Agarwal, Mohammed Iftekhar, Bernard Offmann, Alexandre G. de Brevern, Narayanaswamy Srinivasan
Software Mentions: 2
Published: over 11 years ago

10.1016/j.devcel.2019.07.017

Temporal Ordering in Endocytic Clathrin-Coated Vesicle Formation via AP2 Phosphorylation
Cited by: 37
Author(s): Antoni G. Wrobel, Zuzana Kadlecova, Jan Kamenický, Ji‐Chun Yang, Torsten Herrmann, Bernard T. Kelly, Airlie J. McCoy, Philip R. Evans, Stephen R. Martin, Stefan Müller, Susanne Salomon, Filip Šroubek, David Neuhaus, Stefan Höning, David J. Owen
Software Mentions: 2
Published: over 5 years ago

10.1186/s13395-020-00226-5

High-throughput proteomics fiber typing (ProFiT) for comprehensive characterization of single skeletal muscle fibers
Cited by: 24
Author(s): Sebastian Kallabis, Lena Abraham, Stefan Müller, Verena Dzialas, Clara Türk, Janica L. Wiederstein, Theresa Bock, Hendrik Nolte, Leonardo Nogara, Bert Blaauw, Thomas Braun, Marcus Krüger
Software Mentions: 2
Published: over 4 years ago

10.1186/s13029-019-0075-3

iPBAvizu: a PyMOL plugin for an efficient 3D protein structure superimposition approach
Cited by: 11
Author(s): Guilhem Faure, Agnel Praveen Joseph, Pierrick Craveur, Tarun Jairaj Narwani, Narayanaswamy Srinivasan, Jean‐Christophe Gelly, Joseph Rebehmed, Alexandre G. de Brevern
Software Mentions: 2
Published: about 5 years ago

10.1186/1472-6807-12-29

MTMDAT-HADDOCK: High-throughput, protein complex structure modeling based on limited proteolysis and mass spectrometry
Cited by: 11
Author(s): Janosch Hennig, Sjoerd J. de Vries, Klaus Dm Hennig, Leah Randles, Kylie J. Walters, Maria Sunnerhagen, Alexandre M. J. J. Bonvin
Software Mentions: 2
Published: almost 13 years ago

10.1371/journal.pone.0244613

Interactomic affinity profiling by holdup assay: Acetylation and distal residues impact the PDZome-binding specificity of PTEN phosphatase
Cited by: 9
Author(s): Pau Jané, Gergő Gógl, Camille Kostmann, Goran Bich, Virginie Girault, Célia Caillet‐Saguy, Pascal Eberling, Renaud Vincentelli, Nicolas Wolff, Gilles Travé, Yves Nominé
Software Mentions: 2
Published: almost 4 years ago

10.7554/eLife.28751

Cerebral mGluR5 availability contributes to elevated sleep need and behavioral adjustment after sleep deprivation
Cited by: 48
Author(s): Sebastian C. Holst, Alexandra Sousek, Katharina Hefti, Sohrab Saberi-Moghadam, Alfred Buck, Simon M. Ametamey, Milan Scheidegger, Paul Franken, A Henning, Erich Seifritz, Mehdi Tafti, Hans Landolt
Software Mentions: 2
Published: about 7 years ago

10.7554/eLife.02375

AFF4 binding to Tat-P-TEFb indirectly stimulates TAR recognition of super elongation complexes at the HIV promoter
Cited by: 44
Author(s): Ursula Schulze‐Gahmen, Huasong Lu, Qiang Zhou, Tom Alber
Software Mentions: 2
Published: over 10 years ago

10.1007/s10334-018-0716-6

Short-acquisition-time JPRESS and its application to paediatric brain tumours
Cited by: 2
Author(s): Dominic Carlin, Ben Babourina‐Brooks, Theodoros N. Arvanitis, Martin Wilson, Andrew Peet
Software Mentions: 2
Published: about 6 years ago

10.3390/ijms21113769

Affibody-Binding Ligands
Cited by: 18
Author(s): Annalisa Barozzi, R. Ashton Lavoie, Kevin Day, Raphael Prodromou, Stefano Menegatti
Software Mentions: 2
Published: over 4 years ago

10.3390/polym10101079

Two Orders of Magnitude Variation of Diffusion-Enhanced Förster Resonance Energy Transfer in Polypeptide Chains
Cited by: 2
Author(s): Maik H. Jacob, Indrajit Ghosh, Roy N. Dsouza, Werner M. Nau
Software Mentions: 1
Published: about 6 years ago

10.1038/srep27690

Azole Antifungal Sensitivity of Sterol 14α-Demethylase (CYP51) and CYP5218 from Malassezia globosa
Cited by: 11
Author(s): Andrew G. S. Warrilow, Claire Price, Josie E. Parker, Nicola J. Rolley, Christopher J. Smyrniotis, David D. Hughes, Vera Thoss, W. David Nes, Diane Kelly, Theodore R. Holman, Steven L. Kelly
Software Mentions: 1
Published: over 8 years ago

10.1038/srep31747

Accelerated Echo Planer J-resolved Spectroscopic Imaging of Putamen and Thalamus in Obstructive Sleep Apnea
Cited by: 7
Author(s): Manoj K. Sarma, Paul M. Macey, Rajakumar Nagarajan, Ravi Aysola, Ronald M. Harper, M. Albert Thomas
Software Mentions: 1
Published: about 8 years ago

10.1038/srep34732

A simple, high-throughput modeling approach reveals insights into the mechanism of gametophytic self-incompatibility
Cited by: 0
Author(s): Jahanshah Ashkani, D. J. G. Rees
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-017-04065-1

Prior-knowledge Fitting of Accelerated Five-dimensional Echo Planar J-resolved Spectroscopic Imaging: Effect of Nonlinear Reconstruction on Quantitation
Cited by: 3
Author(s): Zohaib Iqbal, Neil Wilson, M. Albert Thomas
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-07156-1

Predictions of Backbone Dynamics in Intrinsically Disordered Proteins Using De Novo Fragment-Based Protein Structure Predictions
Cited by: 10
Author(s): Tomasz Kościółek, Daniel W. A. Buchan, David T. Jones
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-017-06642-w

Glargine and degludec: Solution behaviour of higher dose synthetic insulins
Cited by: 9
Author(s): Gary G. Adams, Qushmua Alzahrani, Shahwar I. Jiwani, Andy Meal, Paul S. Morgan, Frank Coffey, Samil M. Kök, Arthur J. Rowe, Stephen E. Harding, Naomi E. Chayen, Richard B. Gillis
Software Mentions: 1
Published: over 7 years ago

10.1038/s41598-018-31591-3

Two-Dimensional Proton Magnetic Resonance Spectroscopy versus J-Editing for GABA Quantification in Human Brain: Insights from a GABA-Aminotransferase Inhibitor Study
Cited by: 4
Author(s): Andrew P. Prescot, James J. Prisciandaro, Steven R. Miller, Г. Ингенито, Douglas G. Kondo, Perry F. Renshaw
Software Mentions: 1
Published: about 6 years ago

10.1107/S2052252515015250

Changes in protein structure at the interface accompanying complex formation
Cited by: 21
Author(s): Devlina Chakravarty, Joël Janin, Charles H. Robert, Pinak Chakrabarti
Software Mentions: 1
Published: about 9 years ago

10.1155/2012/179365

2D MR Spectroscopy Combined with Prior-Knowledge Fitting Is Sensitive to HCV-Associated Cerebral Metabolic Abnormalities
Cited by: 15
Author(s): Rajakumar Nagarajan, Manoj K. Sarma, April D. Thames, Steven A. Castellon, Charles H. Hinkin, M. Albert Thomas
Software Mentions: 1
Published: almost 13 years ago

10.1177/2041669517698149

Adaptation-Induced Blindness Is Orientation-Tuned and Monocular
Cited by: 3
Author(s): Deborah Apthorp, Scott Griffiths, David Alais, John Cass
Software Mentions: 1
Published: over 7 years ago

10.7554/eLife.03430

Sequence co-evolution gives 3D contacts and structures of protein complexes
Cited by: 454
Author(s): Thomas A. Hopf, Charlotta Schärfe, João P. G. L. M. Rodrigues, Anna G. Green, Oliver Kohlbacher, Chris Sander, Alexandre M. J. J. Bonvin, Daniel Marks
Software Mentions: 1
Published: about 10 years ago

10.3390/ijms12010226

Computational Docking of Antibody-Antigen Complexes, Opportunities and Pitfalls Illustrated by Influenza Hemagglutinin
Cited by: 58
Author(s): Mattia Pedotti, Luca Simonelli, Elsa Livoti, Luca Varani
Software Mentions: 1
Published: almost 14 years ago

10.3390/ijms131217185

Virtual Screening of Specific Insulin-Like Growth Factor 1 Receptor (IGF1R) Inhibitors from the National Cancer Institute (NCI) Molecular Database
Cited by: 4
Author(s): Cong Fan, Yanxin Huang, Yongli Bao, Luguo Sun, Yin Wu, Chunlei Yu, Yu Zhang, Zhenbo Song, Lihua Zheng, Yu Sun, Guan‐Nan Wang, Yuxin Li
Software Mentions: 1
Published: almost 12 years ago

10.3390/ijms22041634

Screening of Yeast Display Libraries of Enzymatically Treated Peptides to Discover Macrocyclic Peptide Ligands
Cited by: 13
Author(s): John Bowen, John D. Schneible, Kaitlyn Bacon, Collin Labar, Stefano Menegatti, Balaji M. Rao
Software Mentions: 1
Published: almost 4 years ago

10.1107/S1399004713032276

Structural analysis of β-glucosidase mutants derived from a hyperthermophilic tetrameric structure
Cited by: 4
Author(s): Makoto Nakabayashi, Mikio Kataoka, Yumiko Mishima, Yuka Maeno, Kazuhiko Ishikawa
Software Mentions: 1
Published: over 10 years ago

10.1186/s12967-016-1035-1

Non-invasive detection of 2-hydroxyglutarate in IDH-mutated gliomas using two-dimensional localized correlation spectroscopy (2D L-COSY) at 7 Tesla
Cited by: 34
Author(s): Gaurav Verma, Suyash Mohan, MacLean P. Nasrallah, Steven Brem, John Y.K. Lee, Sanjeev Chawla, Sumei Wang, Rajakumar Nagarajan, M. Albert Thomas, Harish Poptani
Software Mentions: 1
Published: about 8 years ago

10.1107/S2053230X14010188

Monomer structure of a hyperthermophilic β-glucosidase mutant forming a dodecameric structure in the crystal form
Cited by: 2
Author(s): Makoto Nakabayashi, Mikio Kataoka, Masahiro Watanabe, Kazuhiko Ishikawa
Software Mentions: 1
Published: over 10 years ago

10.1128/AAC.02586-18

The Evolution of Azole Resistance in Candida albicans Sterol 14α-Demethylase (CYP51) through Incremental Amino Acid Substitutions
Cited by: 30
Author(s): Andrew G. S. Warrilow, Andrew T. Nishimoto, Josie E. Parker, Claire Price, Stephanie A. Flowers, Diane Kelly, P. David Rogers, Steven L. Kelly
Software Mentions: 1
Published: over 5 years ago

10.3390/antiox10020329

Fine-Tuning the Biological Profile of Multitarget Mitochondriotropic Antioxidants for Neurodegenerative Diseases
Cited by: 8
Author(s): Daniel Chavarria, Ophelie Da Silva, Sofia Benfeito, Sandra Barreiro, Jorge Garrido, Fernando Cagide, Pedro Soares, Fernando Remião, Xavier Brazzolotto, Florian Nachon, Paulo J. Oliveira, José Dias
Software Mentions: 1
Published: over 3 years ago

10.3390/antiox10091407

In Vivo Brain GSH: MRS Methods and Clinical Applications
Cited by: 24
Author(s): Francesca Bottino, Martina Lucignani, Antonio Napolitano, Francesco Dellepiane, Emiliano Visconti, Maria Camilla Rossi Espagnet, Luca Pasquini
Software Mentions: 1
Published: about 3 years ago

10.1186/1471-2105-7-310

Docking protein domains in contact space
Cited by: 14
Author(s): Stefano Lise, Alice Walker-Taylor, David T. Jones
Software Mentions: 1
Published: over 18 years ago

10.1186/s12859-018-2044-2

Large scale analysis of protein conformational transitions from aqueous to non-aqueous media
Cited by: 5
Author(s): Ana Julia Velez Rueda, Alexander Miguel Monzón, Sebastián M. Ardanaz, Luis E. Iglesias, Gustavo Parisi
Software Mentions: 1
Published: almost 7 years ago

10.1186/1471-2105-6-S4-S8

Secondary structure assignment that accurately reflects physical and evolutionary characteristics
Cited by: 57
Author(s): Maria Vittoria Cubellis, Fabien Cailliez, Simon C. Lovell
Software Mentions: 1
Published: almost 19 years ago

10.1186/1471-2164-13-S4-S4

Predict impact of single amino acid change upon protein structure
Cited by: 43
Author(s): Christian Schaefer, Burkhard Rost
Software Mentions: 1
Published: almost 13 years ago

10.1186/1471-2210-7-8

Structural and functional definition of the specificity of a novel caspase-3 inhibitor, Ac-DNLD-CHO
Cited by: 26
Author(s): Atsushi Yoshimori, Jun‐ichi Sakai, Satoshi Sunaga, Tomomi Kobayashi, Satoshi Takahashi, Naoyuki Okita, Ryoko Takasawa, Sei‐ichi Tanuma
Software Mentions: 1
Published: over 17 years ago

10.1186/1472-6807-7-61

Identification of DNA-binding protein target sequences by physical effective energy functions, free energy analysis of lambda repressor-DNA complexes
Cited by: 9
Author(s): Elisabetta Moroni, Michele Caselle, Federico Fogolari
Software Mentions: 1
Published: almost 18 years ago

10.1186/1472-6807-8-12

Structural deformation upon protein-protein interaction: A structural alphabet approach
Cited by: 15
Author(s): Juliette Martin, Leslie Regad, Hélène Lecornet, Anne-Claude Camproux
Software Mentions: 1
Published: almost 17 years ago

10.1186/1472-6807-9-39

Modelling substrate specificity and enantioselectivity for lipases and esterases by substrate-imprinted docking
Cited by: 40
Author(s): P. Benjamin Juhl, Peter Trodler, Sadhna Tyagi, Jürgen Pleiss
Software Mentions: 1
Published: over 15 years ago

10.1016/j.bios.2016.02.028

Label-free electrochemical impedance biosensor to detect human interleukin-8 in serum with sub-pg/ml sensitivity
Cited by: 109
Author(s): Rajan Sharma, Sarah E. Deacon, D. Nowak, Suja E. George, Michal Szymonik, Anna A Tang, Darren C. Tomlinson, A. G. Davies, Michael J. McPherson, Christoph Wälti
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pbio.1000415

BiP Binding to the ER-Stress Sensor Ire1 Tunes the Homeostatic Behavior of the Unfolded Protein Response
Cited by: 360
Author(s): David Pincus, Michael Chevalier, Tomás Aragón, Eelco van Anken, Simon E. Vidal, Hana El-Samad, Peter Walter
Software Mentions: 1
Published: over 14 years ago

10.1371/journal.pone.0065928

Discovery of a Novel Dual Fungal CYP51/Human 5-Lipoxygenase Inhibitor: Implications for Anti-Fungal Therapy
Cited by: 17
Author(s): Eric K. Hoobler, Ganesha Rai, Andrew G. S. Warrilow, Steve Perry, Christopher J. Smyrniotis, Ajit Jadhav, Anton Simeonov, Josie E. Parker, Diane Kelly, David J. Maloney, Steven L. Kelly, Theodore R. Holman
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0059163

Structural Model for the Interaction of a Designed Ankyrin Repeat Protein with the Human Epidermal Growth Factor Receptor 2
Cited by: 17
Author(s): V. Chandana Epa, Olan Dolezal, Larissa Doughty, Xiaowen Xiao, Christian Jöst, Andreas Plückthun, Timothy E. Adams
Software Mentions: 1
Published: over 11 years ago

10.1371/journal.pone.0094981

Redefining the PF06864 Pfam Family Based on Burkholderia pseudomallei PilO2Bp S-SAD Crystal Structure
Cited by: 4
Author(s): Patricia Lassaux, Óscar Conchillo-Solé, Babu A. Manjasetty, Daniel Yero, L Perletti, Hassan Belrhali, Xavier Daura, L.J. Gourlay, Martino Bolognesi
Software Mentions: 1
Published: over 10 years ago

10.1371/journal.pone.0162810

Pilot Assessment of Brain Metabolism in Perinatally HIV-Infected Youths Using Accelerated 5D Echo Planar J-Resolved Spectroscopic Imaging
Cited by: 4
Author(s): Zohaib Iqbal, Neil Wilson, Margaret Keller, David E. Michalik, Joseph A. Church, Karin Nielsen‐Saines, Jaime G. Deville, Raissa Souza, Mary‐Lynn Brecht, M. Albert Thomas
Software Mentions: 1
Published: about 8 years ago

10.1371/journal.pone.0003243

Computational Structural Analysis: Multiple Proteins Bound to DNA
Cited by: 11
Author(s): Andrija Tomović, Edward J. Oakeley
Software Mentions: 1
Published: about 16 years ago

10.1371/journal.pone.0185356

OXSA: An open-source magnetic resonance spectroscopy analysis toolbox in MATLAB
Cited by: 67
Author(s): Lucian Ab Purvis, William T. Clarke, Luca Biasiolli, Ladislav Valkovič, Matthew D Robson, Christopher T. Rodgers
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0007730

Potent New Small-Molecule Inhibitor of Botulinum Neurotoxin Serotype A Endopeptidase Developed by Synthesis-Based Computer-Aided Molecular Design
Cited by: 45
Author(s): Yuan Ping Pang, Anuradha Vummenthala, Rajesh Mishra, Jewn Giew Park, Shaohua Wang, Jon Davis, Charles B. Millard, James J. Schmidt
Software Mentions: 1
Published: about 15 years ago

10.1371/journal.pone.0191063

Large-scale mapping of bioactive peptides in structural and sequence space
Cited by: 16
Author(s): Agustina Estefanía Nardo, M. C. Añón, Gustavo Parisi
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pone.0124277

The Structure of the T190M Mutant of Murine α-Dystroglycan at High Resolution: Insight into the Molecular Basis of a Primary Dystroglycanopathy
Cited by: 11
Author(s): Manuela Bozzi, Alberto Cassetta, Sonia Covaceuszach, Maria Giulia Bigotti, Saskia Bannister, Wolfgang Hübner, Francesca Sciandra, Doriano Lamba, Andrea Brancaccio
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0005957

Structure of HI-6•Sarin-Acetylcholinesterase Determined by X-Ray Crystallography and Molecular Dynamics Simulation: Reactivator Mechanism and Design
Cited by: 79
Author(s): Fredrik Ekström, A. Hörnberg, Elisabet Artursson, Lars G.J. Hammarström, Günter Schneider, Yuan Ping Pang
Software Mentions: 1
Published: over 15 years ago

10.1371/journal.pone.0007011

Comparative Sequence and Structural Analyses of G-Protein-Coupled Receptor Crystal Structures and Implications for Molecular Models
Cited by: 78
Author(s): Catherine L. Worth, Gunnar Kleinau, Gerd Krause
Software Mentions: 1
Published: about 15 years ago

10.1016/j.cell.2010.05.006

A Large-Scale Conformational Change Couples Membrane Recruitment to Cargo Binding in the AP2 Clathrin Adaptor Complex
Cited by: 298
Author(s): Lauren P. Jackson, Bernard T. Kelly, Airlie J. McCoy, Thomas Gaffry, Leo C. James, Brett M. Collins, Stefan Höning, Philip R. Evans, David J. Owen
Software Mentions: 1
Published: over 14 years ago

10.1093/database/baw038

CoDNaS 2.0: a comprehensive database of protein conformational diversity in the native state
Cited by: 53
Author(s): Alexander Miguel Monzón, Cristian Oscar Rohr, Marı́a Silvina Fornasari, Gustavo Parisi
Software Mentions: 1
Published: almost 9 years ago

10.1007/s00249-015-1106-x

Measuring kinetic drivers of pneumolysin pore structure
Cited by: 24
Author(s): Robert J.C. Gilbert, Andreas F.‐P. Sonnen
Software Mentions: 1
Published: over 8 years ago

10.3389/fnagi.2017.00118

Insulin Resistance as a Link between Amyloid-Beta and Tau Pathologies in Alzheimer’s Disease
Cited by: 111
Author(s): Roger J. Mullins, Thomas C. Diehl, Chee W. Chia, Dimitrios Kapogiannis
Software Mentions: 1
Published: over 7 years ago

10.3389/fcell.2019.00281

More Favorable Palmitic Acid Over Palmitoleic Acid Modification of Wnt3 Ensures Its Localization and Activity in Plasma Membrane Domains
Cited by: 10
Author(s): Yagmur Azbazdar, Özgün Özalp, Erdinç Sezgin, Sapthaswaran Veerapathiran, Anna L. Duncan, Mark S.P. Sansom, Christian Eggeling, Thorsten Wohland, Ezgi Karaca, Günes Özhan
Software Mentions: 1
Published: about 5 years ago

10.3389/fchem.2020.00167

Integrating Ligand and Target-Driven Based Virtual Screening Approaches With in vitro Human Cell Line Models and Time-Resolved Fluorescence Resonance Energy Transfer Assay to Identify Novel Hit Compounds Against BCL-2
Cited by: 17
Author(s): Gurbet Tutumlu, Berna Doğan, Timuçin Avşar, Müge Didem Orhan, Seyma Calis, Serdar Durdağı
Software Mentions: 1
Published: over 4 years ago

10.3389/fnmol.2016.00002

A Toolkit for Orthogonal and in vivo Optical Manipulation of Ionotropic Glutamate Receptors
Cited by: 38
Author(s): Joshua Levitz, Andrei T. Popescu, Andreas Reiner, Ehud Y. Isacoff
Software Mentions: 1
Published: almost 9 years ago

10.3389/fpsyt.2021.668304

Lower Ventromedial Prefrontal Cortex Glutamate Levels in Patients With Obsessive–Compulsive Disorder
Cited by: 9
Author(s): Marcelo C. Batistuzzo, Bruna A. Sottili, Roseli Gedanke Shavitt, Antônio Carlos Lopes, Carolina Cappi, Maria Alice de Mathis, Bruno Fraccini Pastorello, Juliana Belo Diniz, Renata M. F. Silva, Eurípedes Constantino Miguel, Marcelo Q. Hoexter, Maria Concepción García Otaduy
Software Mentions: 1
Published: over 3 years ago

10.1186/s40203-016-0016-7

Functioning of drug-metabolizing microsomal cytochrome P450s: In silico probing of proteins suggests that the distal heme ‘active site’ pocket plays a relatively ‘passive role’ in some enzyme-substrate interactions
Cited by: 25
Author(s): Avanthika Venkatachalam, Abhinav Parashar, Kelath Murali Manoj
Software Mentions: 1
Published: almost 9 years ago

10.1007/s13361-018-2070-3

Quantitative Evaluation of Native Protein Folds and Assemblies by Hydrogen Deuterium Exchange Mass Spectrometry (HDX-MS)
Cited by: 12
Author(s): Mary Harris, Deepika Raghavan, Antoni J. Borysik
Software Mentions: 1
Published: about 6 years ago

Projects: cran: ProFit

Papers Mentioning ProFit 88