| 0 | -- | 0 | Hansaim Lim, Di He, Yue Qiu, Patrycja Krawczuk, Xiaoru Sun, Lei Xie. Rational discovery of dual-indication multi-target PDE/Kinase inhibitor for precision anti-cancer therapy using structural systems pharmacology |
| 0 | -- | 0 | Yingqian Ada Zhan, Charles Gregory Wray, Sandeep Namburi, Spencer T. Glantz, Reinhard C. Laubenbacher, Jeffrey H. Chuang. Fostering bioinformatics education through skill development of professors: Big Genomic Data Skills Training for Professors |
| 0 | -- | 0 | Samuel P. Muscinelli, Wulfram Gerstner, Tilo Schwalger. How single neuron properties shape chaotic dynamics and signal transmission in random neural networks |
| 0 | -- | 0 | Payam Piray, Amir Dezfouli, Tom Heskes, Michael J. Frank, Nathaniel D. Daw. Hierarchical Bayesian inference for concurrent model fitting and comparison for group studies |
| 0 | -- | 0 | Paul W. Sweeney, Angela d'Esposito, Simon Walker-Samuel, Rebecca J. Shipley. Modelling the transport of fluid through heterogeneous, whole tumours in silico |
| 0 | -- | 0 | . Correction: Effects of Darwinian Selection and Mutability on Rate of Broadly Neutralizing Antibody Evolution during HIV-1 Infection |
| 0 | -- | 0 | Kymberleigh A. Pagel, Danny Antaki, Aojie Li, Matthew E. Mort, David N. Cooper, Jonathan Sebat, Lilia M. Iakoucheva, Sean D. Mooney, Predrag Radivojac. Pathogenicity and functional impact of non-frameshifting insertion/deletion variation in the human genome |
| 0 | -- | 0 | Ruth Nussinov, Chung-Jung Tsai, Hyunbum Jang. Protein ensembles link genotype to phenotype |
| 0 | -- | 0 | Alexander S. Leonard, Sebastian E. Ahnert. Evolution of interface binding strengths in simplified model of protein quaternary structure |
| 0 | -- | 0 | Rohan V. Koodli, Benjamin Keep, Katherine R. Coppess, Fernando Portela, Rhiju Das. EternaBrain: Automated RNA design through move sets and strategies from an Internet-scale RNA videogame |
| 0 | -- | 0 | David Hasler, Pinelopi Anagnostopoulou, Sylvia Nyilas, Philipp Latzin, Johannes C. Schittny, Dominik Obrist. A multi-scale model of gas transport in the lung to study heterogeneous lung ventilation during the multiple-breath washout test |
| 0 | -- | 0 | Daniel S. Himmelstein, Vincent Rubinetti, David R. Slochower, Dongbo Hu, Venkat S. Malladi, Casey S. Greene, Anthony Gitter. Open collaborative writing with Manubot |
| 0 | -- | 0 | . Notification of Republication: Modeling individual time courses of thrombopoiesis during multi-cyclic chemotherapy |
| 0 | -- | 0 | . Correction: Atrial arrhythmogenicity of KCNJ2 mutations in short QT syndrome: Insights from virtual human atria |
| 0 | -- | 0 | Matthew J. Michalska-Smith, Stefano Allesina. Telling ecological networks apart by their structure: A computational challenge |
| 0 | -- | 0 | . Correction: Reconstructible Phylogenetic Networks: Do Not Distinguish the Indistinguishable |
| 0 | -- | 0 | Erlend Hodneland, Erik A. Hanson, Ove Sævareid, Geir Nævdal, Arvid Lundervold, Veronika Soltészová, Antonella Zanna Munthe-Kaas, Andreas Deistung, Jürgen R. Reichenbach, Jan M. Nordbotten. A new framework for assessing subject-specific whole brain circulation and perfusion using MRI-based measurements and a multi-scale continuous flow model |
| 0 | -- | 0 | Laurens F. M. Verscheijden, Jan B. Koenderink, Saskia N. de Wildt, Frans G. M. Russel. Development of a physiologically-based pharmacokinetic pediatric brain model for prediction of cerebrospinal fluid drug concentrations and the influence of meningitis |
| 0 | -- | 0 | Anthony Hauser, Katharina Kusejko, Leigh F. Johnson, Gilles Wandeler, Julien Riou, Fardo Goldstein, Matthias Egger, Roger D. Kouyos. Bridging the gap between HIV epidemiology and antiretroviral resistance evolution: Modelling the spread of resistance in South Africa |
| 0 | -- | 0 | . Correction: A dynamic genetic-hormonal regulatory network model explains multiple cellular behaviors of the root apical meristem of Arabidopsis thaliana |
| 0 | -- | 0 | David S. Goodsell, Andrew Jewett, Arthur J. Olson, Stefano Forli. Integrative modeling of the HIV-1 ribonucleoprotein complex |
| 0 | -- | 0 | Annette McGrath, Katherine Champ, Catherine A. Shang, Ellen van Dam, Cath Brooksbank, Sarah L. Morgan. From trainees to trainers to instructors: Sustainably building a national capacity in bioinformatics training |
| 0 | -- | 0 | Hanne Hoitzing, Payam A. Gammage, Lindsey Van Haute, Michal Minczuk, Iain G. Johnston, Nick S. Jones. Energetic costs of cellular and therapeutic control of stochastic mitochondrial DNA populations |
| 0 | -- | 0 | Jose Manuel Martí. Correction: Recentrifuge: Robust comparative analysis and contamination removal for metagenomics |
| 0 | -- | 0 | Michael Beyeler, Emily L. Rounds, Kristofor D. Carlson, Nikil D. Dutt, Jeffrey L. Krichmar. Neural correlates of sparse coding and dimensionality reduction |
| 0 | -- | 0 | Tamara Carla Bidone, Austin V. Skeeters, Patrick W. Oakes, Gregory A. Voth. Multiscale model of integrin adhesion assembly |
| 0 | -- | 0 | Wan Yang, Liang Wen, Shen-Long Li, Kai Chen, Wen-yi Zhang, Jeffrey Shaman. Correction: Geospatial characteristics of measles transmission in China during 2005-2014 |
| 0 | -- | 0 | Filip Gesiarz, Donal Cahill, Tali Sharot. Evidence accumulation is biased by motivation: A computational account |
| 0 | -- | 0 | . Correction: Most Undirected Random Graphs Are Amplifiers of Selection for Birth-Death Dynamics, but Suppressors of Selection for Death-Birth Dynamics |
| 0 | -- | 0 | Lan H. Nguyen, Susan P. Holmes. Ten quick tips for effective dimensionality reduction |
| 0 | -- | 0 | Ruth Nussinov, Hyunbum Jang, Chung-Jung Tsai, Feixiong Cheng. Correction: Review: Precision medicine and driver mutations: Computational methods, functional assays and conformational principles for interpreting cancer drivers |
| 0 | -- | 0 | Romain Ligneul. Sequential exploration in the Iowa gambling task: Validation of a new computational model in a large dataset of young and old healthy participants |
| 0 | -- | 0 | Duncan J. MacGregor, Gareth Leng. Emergent decision-making behaviour and rhythm generation in a computational model of the ventromedial nucleus of the hypothalamus |
| 0 | -- | 0 | Marzena Mura, Céline Feillet, Roberto Bertolusso, Franck Delaunay, Marek Kimmel. Mathematical modelling reveals unexpected inheritance and variability patterns of cell cycle parameters in mammalian cells |
| 0 | -- | 0 | Joshua M. Mueller, Primoz Ravbar, Julie H. Simpson, Jean M. Carlson. Drosophila melanogaster grooming possesses syntax with distinct rules at different temporal scales |
| 0 | -- | 0 | Anna Song, Olivier D. Faugeras, Romain Veltz. A neural field model for color perception unifying assimilation and contrast |
| 0 | -- | 0 | . Correction: The Equivalence of Information-Theoretic and Likelihood-Based Methods for Neural Dimensionality Reduction |
| 0 | -- | 0 | Sean L. Seyler, Avishek Kumar, M. F. Thorpe, Oliver Beckstein. Correction: Path Similarity Analysis: A Method for Quantifying Macromolecular Pathways |
| 0 | -- | 0 | Amir Dezfouli, Kristi Griffiths, Fabio Ramos, Peter Dayan, Bernard W. Balleine. Models that learn how humans learn: The case of decision-making and its disorders |
| 0 | -- | 0 | Kalinga Pavan T. Silva, James Q. Boedicker. A neural network model predicts community-level signaling states in a diverse microbial community |
| 0 | -- | 0 | Hiroshi Momiji, Kirsty L. Hassall, Karen Featherstone, Anne V. McNamara, Amanda L. Patist, David G. Spiller, Helen C. Christian, Michael R. H. White, Julian R. E. Davis, Bärbel F. Finkenstädt, David A. Rand. Disentangling juxtacrine from paracrine signalling in dynamic tissue |
| 0 | -- | 0 | Claire Bomkamp, Shreejoy J. Tripathy, Carolina Bengtsson Gonzales, Jens Hjerling-Leffler, Ann Marie Craig, Paul Pavlidis. Transcriptomic correlates of electrophysiological and morphological diversity within and across excitatory and inhibitory neuron classes |
| 0 | -- | 0 | Ibrahim Cheddadi, Michel Génard, Nadia Bertin, Christophe Godin. Coupling water fluxes with cell wall mechanics in a multicellular model of plant development |
| 0 | -- | 0 | Hongjun Bai, Yifan Li, Nelson Michael, Merlin L. Robb, Morgane Rolland. The breadth of HIV-1 neutralizing antibodies depends on the conservation of key sites in their epitopes |
| 0 | -- | 0 | Mahua Roy, Stacey D. Finley. Metabolic reprogramming dynamics in tumor spheroids: Insights from a multicellular, multiscale model |
| 0 | -- | 0 | Sanjeevan Ahilan, Rebecca B. Solomon, Yannick-André Breton, Kent L. Conover, Ritwik K. Niyogi, Peter Shizgal, Peter Dayan. Learning to use past evidence in a sophisticated world model |
| 0 | -- | 0 | Thomas M. Bury, Chris T. Bauch, Madhur Anand. Charting pathways to climate change mitigation in a coupled socio-climate model |
| 0 | -- | 0 | Mikael F. Forsgren, Markus Karlsson, Olof Dahlqvist Leinhard, Nils Dahlström, Bengt Norén, Thobias Romu, Simone Ignatova, Mattias Ekstedt, Stergios Kechagias, Peter Lundberg, Gunnar Cedersund. Model-inferred mechanisms of liver function from magnetic resonance imaging data: Validation and variation across a clinically relevant cohort |
| 0 | -- | 0 | Marouen Ben Guebila, Ines Thiele. Predicting gastrointestinal drug effects using contextualized metabolic models |
| 0 | -- | 0 | Sora An, Fabrice Bartolomei, Maxime Guye, Viktor K. Jirsa. Optimization of surgical intervention outside the epileptogenic zone in the Virtual Epileptic Patient (VEP) |
| 0 | -- | 0 | . Correction: Ten Simple Rules for Taking Advantage of Git and GitHub |
| 0 | -- | 0 | . Correction: Infectious reactivation of cytomegalovirus explaining age- and sex-specific patterns of seroprevalence |
| 0 | -- | 0 | Ingoo Lee, Jongsoo Keum, Hojung Nam. DeepConv-DTI: Prediction of drug-target interactions via deep learning with convolution on protein sequences |
| 0 | -- | 0 | Jay Ghurye, Mihai Pop. Modern technologies and algorithms for scaffolding assembled genomes |
| 0 | -- | 0 | Atsushi Kamimura, Yoshiya Matsubara, Kunihiko Kaneko, Nobuto Takeuchi. Horizontal transfer between loose compartments stabilizes replication of fragmented ribozymes |
| 0 | -- | 0 | Yifeng Qi, Bin Zhang. Predicting three-dimensional genome organization with chromatin states |
| 0 | -- | 0 | Liat Shenhav, Ori Furman, Leah Briscoe, Mike Thompson, Justin D. Silverman, Itzhak Mizrahi, Eran Halperin. Modeling the temporal dynamics of the gut microbial community in adults and infants |
| 0 | -- | 0 | Yapeng Su, Marcus Bintz, Yezi Yang, Lidia Robert, Alphonsus H. C. Ng, Victoria Liu, Antoni Ribas, James R. Heath, Wei Wei. Phenotypic heterogeneity and evolution of melanoma cells associated with targeted therapy resistance |
| 0 | -- | 0 | . Correction: Deciphering Signaling Pathway Networks to Understand the Molecular Mechanisms of Metformin Action |
| 0 | -- | 0 | Daniel H. Baker, Bruno Richard 0003. Dynamic properties of internal noise probed by modulating binocular rivalry |
| 0 | -- | 0 | Monica Civera, Francesca Vasile, Donatella Potenza, Cinzia Colombo, Sara Parente, Chiara Vettraino, Tommaso Prosdocimi, Emilio Parisini, Laura Belvisi. Exploring E-cadherin-peptidomimetics interaction using NMR and computational studies |
| 0 | -- | 0 | Sid Kiblawi, Deborah Chasman, Amanda Henning, Eunju Park, Hoifung Poon, Michael Gould, Paul Ahlquist, Mark Craven. Augmenting subnetwork inference with information extracted from the scientific literature |
| 0 | -- | 0 | Benedict Borer, Meriç Ataman, Vassily Hatzimanikatis, Dani Or. Modeling metabolic networks of individual bacterial agents in heterogeneous and dynamic soil habitats (IndiMeSH) |
| 0 | -- | 0 | Sharmila Venugopal, Soju Seki, David H. Terman, Antonios Pantazis, Riccardo Olcese, Martina Wiedau-Pazos, Scott H. Chandler. Resurgent Na+ Current Offers Noise Modulation in Bursting Neurons |
| 0 | -- | 0 | Angela C. Davies, Diane Harris, Amanda Banks Gatenby, Andy Brass. Problem-based learning in clinical bioinformatics education: Does it help to create communities of practice? |
| 0 | -- | 0 | Sven Zenker, Jonathan E. Rubin, Gilles Clermont. Correction: From Inverse Problems in Mathematical Physiology to Quantitative Differential Diagnoses |
| 0 | -- | 0 | Kristine Briedis, Yi-Shiou Chen, Scott Markel. Ten simple rules for successfully hosting an intern at a scientific software company |
| 0 | -- | 0 | Chuankai Cheng, Edward J. O'Brien, Douglas McCloskey, Jose Utrilla, Connor A. Olson, Ryan A. LaCroix, Troy E. Sandberg, Adam M. Feist, Bernhard O. Palsson, Zachary A. King. Laboratory evolution reveals a two-dimensional rate-yield tradeoff in microbial metabolism |
| 0 | -- | 0 | Takaaki Yonekura, Akitoshi Iwamoto, Hironori Fujita, Munetaka Sugiyama. Mathematical model studies of the comprehensive generation of major and minor phyllotactic patterns in plants with a predominant focus on orixate phyllotaxis |