pypi: PACE | Projects | Ecosyste.ms: Papers

10.1371/journal.pcbi.1007874

Simulating flow induced migration in vascular remodelling
Cited by: 5
Author(s): Ashkan Tabibian, Siavash Ghaffari, Diego A. Vargas, Hans Van Oosterwyck, Elizabeth A. V. Jones
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1008887

MAUI (MBI Analysis User Interface)—An image processing pipeline for Multiplexed Mass Based Imaging
Cited by: 31
Author(s): Alex Baranski, Idan Milo, Shirley Greenbaum, John Paul Oliveria, Dunja Mrdjen, Michael Angelo, Leeat Keren
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008538

Multiobjective optimization identifies cancer-selective combination therapies
Cited by: 9
Author(s): Otto Pulkkinen, Prson Gautam, Ville Mustonen, Tero Aittokallio
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1008971

Analogous computations in working memory input, output and motor gating: Electrophysiological and computational modeling evidence
Cited by: 17
Author(s): Rachel Rac-Lubashevsky, Michael J. Frank
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1007250

The role of actin protrusion dynamics in cell migration through a degradable viscoelastic extracellular matrix: Insights from a computational model
Cited by: 82
Author(s): Tommy Heck, Diego A. Vargas, Bart Smeets, Herman Ramón, Paul Van Liedekerke, Hans Van Oosterwyck
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pcbi.1008373

Timescales of motor memory formation in dual-adaptation
Cited by: 15
Author(s): Marion Forano, David W. Franklin
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1008015

Interactions between calmodulin and neurogranin govern the dynamics of CaMKII as a leaky integrator
Cited by: 15
Author(s): Mariam Ordyan, Tom Bartol, Mary B Kennedy, Padmini Rangamani, Terrence J. Sejnowski
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007692

Learning to represent signals spike by spike
Cited by: 31
Author(s): Wieland Brendel, Ralph Bourdoukan, Pietro Vertechi, Christian K. Machens, Sophie Denève
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008636

A numerical framework for mechano-regulated tendon healing—Simulation of early regeneration of the Achilles tendon
Cited by: 6
Author(s): Thomas Notermans, Petri Tanska, Rami K. Korhonen, Hanifeh Khayyeri, Hanna Isaksson
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1009013

Histone tails cooperate to control the breathing of genomic nucleosomes
Cited by: 17
Author(s): Jan Huertas, Hans R. Schöler, Vlad Cojocaru
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1007888

Taste of time: A porous-medium model for human tongue surface with implications for early taste perception
Cited by: 4
Author(s): Zhenxing Wu, Kai Zhao
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008233

Forecasting influenza in Europe using a metapopulation model incorporating cross-border commuting and air travel
Cited by: 11
Author(s): Sarah Krämer, Sen Pei, Jeffrey Shaman
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1008349

PyHIST: A Histological Image Segmentation Tool
Cited by: 21
Author(s): Manuel Muñoz-Aguirre, Vasilis F. Ntasis, Santiago Rojas, Roderic Guigó
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1008650

Evolution to alternative levels of stable diversity leaves areas of niche space unexplored
Cited by: 6
Author(s): Ilan N. Rubin, Iaroslav Ispolatov, Michael Doebeli
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008443

Practical fluorescence reconstruction microscopy for large samples and low-magnification imaging
Cited by: 12
Author(s): Julienne LaChance, Daniel Cohen
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1007592

The origin of biological homochirality along with the origin of life
Cited by: 32
Author(s): Yong Chen, Wentao Ma
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pcbi.1009098

Projecting contact matrices in 177 geographical regions: An update and comparison with empirical data for the COVID-19 era
Cited by: 90
Author(s): Kiesha Prem, Kevin van Zandvoort, Petra Klepac, Rosalind M Eggo, Nicholas Davies, Alex R. Cook, Mark Jit
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008523

Mistakes can stabilise the dynamics of rock-paper-scissors games
Cited by: 3
Author(s): Maria Kleshnina, Sabrina Streipert, Jerzy A. Filar, Krishnendu Chatterjee
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1009069

PHENSIM: Phenotype Simulator
Cited by: 7
Author(s): Salvatore Alaimo, Rosaria Valentina Rapicavoli, Gioacchino P. Marceca, Alessandro La Ferlita, Oksana B. Serebrennikova, Philip N. Tsichlis, Bud Mishra, Alfredo Pulvirenti, Alfredo Ferro
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1007867

Balance between asymmetry and abundance in multi-domain DNA-binding proteins may regulate the kinetics of their binding to DNA
Cited by: 5
Author(s): Arumay Pal, Yaakov Levy
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008713

Protective impacts of household-based tuberculosis contact tracing are robust across endemic incidence levels and community contact patterns
Cited by: 4
Author(s): Joshua Havumaki, Ted Cohen, Chengwei Zhai, Joel C. Miller, Seth D. Guikema, Marisa C. Eisenberg, Jon Zelner
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1009357

Multiscale model of defective interfering particle replication for influenza A virus infection in animal cell culture
Cited by: 5
Author(s): Daniel Rüdiger, Lars Pelz, Marc D. Hein, Sascha Young Kupke, Udo Reichl
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1007860

The Affective Ising Model: A computational account of human affect dynamics
Cited by: 10
Author(s): Tim Loossens, Merijn Mestdagh, Egon Dejonckheere, Peter Kuppens, Francis Tuerlinckx, Stijn Verdonck
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008954

Deep template-based protein structure prediction
Cited by: 16
Author(s): Fandi Wu, Jinbo Xu
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008825

A computational study of co-inhibitory immune complex assembly at the interface between T cells and antigen presenting cells
Cited by: 2
Author(s): Zhaoqian Su, Kalyani Dhusia, Yinghao Wu
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1007998

Mechanobiological model for simulation of injured cartilage degradation via pro-inflammatory cytokines and mechanical stimulus
Cited by: 19
Author(s): Atte Eskelinen, Petri Tanska, Cristina Florea, Gustavo A. Orozco, Petro Julkunen, Alan J. Grodzinsky, Rami K. Korhonen
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007730

Intuitive physical reasoning about objects’ masses transfers to a visuomotor decision task consistent with Newtonian physics
Cited by: 3
Author(s): Nils Neupärtl, Fabian Tatai, Constantin A. Rothkopf
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1007414

Stochastic optimal open-loop control as a theory of force and impedance planning via muscle co-contraction
Cited by: 18
Author(s): Bastien Berret, Frédéric Jean
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008861

Hypoxic pulmonary vasoconstriction as a regulator of alveolar-capillary oxygen flux: A computational model of ventilation-perfusion matching
Cited by: 5
Author(s): Andrew D. Marquis, Filip Ježek, David J. Pinsky, Daniel A. Beard
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008639

Adaptive social contact rates induce complex dynamics during epidemics
Cited by: 27
Author(s): Ronan F. Arthur, James Holland Jones, Matthew H. Bonds, Yoav Ram, Marcus W. Feldman
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1007383

Why do G-quadruplexes dimerize through the 5’-ends? Driving forces for G4 DNA dimerization examined in atomic detail
Cited by: 25
Author(s): Mateusz Kogut, Cyprian Kleist, Jacek Czub
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pcbi.1009109

Sperm migration in the genital tract—In silico experiments identify key factors for reproductive success
Cited by: 3
Author(s): Jorin Diemer, Jens Hahn, Björn Goldenbogen, Karin Müller, Edda Klipp
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008502

Real-time structural motif searching in proteins using an inverted index strategy
Cited by: 11
Author(s): Sebastian Bittrich, S.K. Burley, Alexander Rose
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1009286

Modelling conformational state dynamics and its role on infection for SARS-CoV-2 Spike protein variants
Cited by: 70
Author(s): Natália Teruel, Olivier Mailhot, Rafaël Najmanovich
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1009134

Internality and the internalisation of failure: Evidence from a novel task
Cited by: 0
Author(s): Federico Mancinelli, Jonathan P. Roiser, Peter Dayan
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008762

How public reaction to disease information across scales and the impacts of vector control methods influence disease prevalence and control efficacy
Cited by: 1
Author(s): Jing Jiao, G. Suárez, Nina H. Fefferman
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1007935

Brain dynamics for confidence-weighted learning
Cited by: 22
Author(s): Florent Meyniel
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007718

Mechanisms underlying attraction to odors in walking Drosophila
Cited by: 13
Author(s): Liangyu Tao, Siddhi Ozarkar, Vikas Bhandawat
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007450

Maximizing the reusability of gene expression data by predicting missing metadata
Cited by: 4
Author(s): Pei-Yau Lung, Dongrui Zhong, Xiaodong Pang, Yan Li, Jinfeng Zhang
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1007801

Electrostatic and bending energies predict staggering and splaying in nonmuscle myosin II minifilaments
Cited by: 8
Author(s): Tom L. Kaufmann, Ulrich S. Schwarz
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1009378

Conventional measures of intrinsic excitability are poor estimators of neuronal activity under realistic synaptic inputs
Cited by: 2
Author(s): Adrienn Szabó, Katalin Schlett, Attila Szűcs
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1007917

Compositional Lotka-Volterra describes microbial dynamics in the simplex
Cited by: 41
Author(s): Tyler Joseph, Liat Shenhav, João B. Xavier, Eran Halperin, Itsik Pe’er
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007525

Genome-scale model of metabolism and gene expression provides a multi-scale description of acid stress responses in Escherichia coli
Cited by: 33
Author(s): Bin Du, Laurence T. Yang, Colton J. Lloyd, Xin Fang, Jaehyung Kim
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pcbi.1007951

Model-based and phylogenetically adjusted quantification of metabolic interaction between microbial species
Cited by: 5
Author(s): Tony J. Lam, Moses Stamboulian, Wontack Han, Yuzhen Ye
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1008481

Hierarchical motor adaptations negotiate failures during force field learning
Cited by: 4
Author(s): Tsuyoshi Ikegami, Gowrishankar Ganesh, Tricia L. Gibo, Toshinori Yoshioka, Rieko Osu, Mitsuo Kawato
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1007708

Mechanistic models of PLC/PKC signaling implicate phosphatidic acid as a key amplifier of chemotactic gradient sensing
Cited by: 4
Author(s): Jamie L. Nosbisch, Anisur Rahman, Krithika Mohan, Timothy C. Elston, James E. Bear, Jason M. Haugh
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008079

ADP is the dominant controller of AMP-activated protein kinase activity dynamics in skeletal muscle during exercise
Cited by: 10
Author(s): Ian F. Coccimiglio, D. Clarke
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1009264

Mitigating COVID-19 outbreaks in workplaces and schools by hybrid telecommuting
Cited by: 9
Author(s): Simon Mauras, Vincent Cohen-Addad, Guillaume Duboc, Max Dupré la Tour, Paolo Frasca, Claire Mathieu, Lulla Opatowski, Laurent Viennot
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1007740

Basal leakage in oscillation: Coupled transcriptional and translational control using feed-forward loops
Cited by: 3
Author(s): Ignasius Joanito, Ching‐Cher Sanders Yan, Jhih‐Wei Chu, Shu-Hsing Wu, Chao‐Ping Hsu
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1008483

Unbiased and efficient log-likelihood estimation with inverse binomial sampling
Cited by: 21
Author(s): Bas van Opheusden, Luigi Acerbi, Wei Ji
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1007842

Critical role of deadenylation in regulating poly(A) rhythms and circadian gene expression
Cited by: 4
Author(s): Xiangyu Yao, Shihoko Kojima, Jing Chen
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1009045

Thalamo-cortical spiking model of incremental learning combining perception, context and NREM-sleep
Cited by: 7
Author(s): Bruno Golosio, Chiara De Luca, Cristiano Capone, Elena Pastorelli, Giovanni Stegel, Gianmarco Tiddia, G. De Bonis, P. Paolucci
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008235

Use of Angiotensin-Converting Enzyme Inhibitors and Angiotensin II Receptor Blockers During the COVID-19 Pandemic: A Modeling Analysis
Cited by: 11
Author(s): Mehrshad Sadria, Anita T. Layton
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1009436

Levels of SARS-CoV-2 population exposure are considerably higher than suggested by seroprevalence surveys
Cited by: 21
Author(s): Siyu Chen, Jennifer A. Flegg, Lisa J. White, Ricardo Aguás
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1009279

Eliminating accidental deviations to minimize generalization error and maximize replicability: Applications in connectomics and genomics
Cited by: 23
Author(s): Eric Bridgeford, Shangsi Wang, Zeyi Wang, Ting Xu, R. Cameron Craddock, Jayanta Dey, Gregory Kiar, William Gray-Roncal, Carlo Colantuoni, Christopher Douville, Stephanie Noble, Carey E. Priebe, Brian Caffo, Michael P. Milham, Xi‐Nian Zuo, Reproducibility, Joshua T. Vogelstein
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1009355

Uncertainty quantification and sensitivity analysis of COVID-19 exit strategies in an individual-based transmission model
Cited by: 6
Author(s): Federica Gugole, Luc E. Coffeng, Wouter Edeling, Benjamin Sanderse, Sake J. de Vlas, Daan Crommelin
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1007734

The research and development process for multiscale models of infectious disease systems
Cited by: 14
Author(s): Winston Garira
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007676

Striated myocyte structural integrity: Automated analysis of sarcomeric z-discs
Cited by: 29
Author(s): Tessa Altair Morris, J. P. Naik, Kirby Sinclair Fibben, Xiangduo Kong, Tohru Kiyono, Kyoko Yokomori, Anna Grosberg
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008128

Engineering recurrent neural networks from task-relevant manifolds and dynamics
Cited by: 23
Author(s): Eli Pollock, Mehrdad Jazayeri
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008497

Value-complexity tradeoff explains mouse navigational learning
Cited by: 5
Author(s): Nadav Amir, Reut Suliman-Lavie, Maayan Tal, Sagiv Shifman, Naftali Tishby, Israel Nelken
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1007178

Population modeling of tumor growth curves and the reduced Gompertz model improve prediction of the age of experimental tumors
Cited by: 66
Author(s): Cristina Vaghi, Anne Rodallec, Raphaëlle Fanciullino, Joseph Ciccolini, Jonathan P. Mochel, Michalis Mastri, Clair Poignard, John M.L. Ebos, Sébastien Benzekry
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007611

Self-organization in brain tumors: How cell morphology and cell density influence glioma pattern formation
Cited by: 17
Author(s): Sara Jamous, Andrea Comba, Pedro R. Löwenstein, Sébastien Motsch
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008303

Orientation processing by synaptic integration across first-order tactile neurons
Cited by: 7
Author(s): Etay Hay, J. Andrew Pruszynski
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1008736

Generating functional protein variants with variational autoencoders
Cited by: 81
Author(s): Alex Hawkins-Hooker, Florence Depardieu, Sebastien Baur, Guillaume Couairon, Arthur Chen, David Bikard
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008031

Estimation of country-level basic reproductive ratios for novel Coronavirus (SARS-CoV-2/COVID-19) using synthetic contact matrices
Cited by: 93
Author(s): Joe Hilton, Matthew James Keeling
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007618

A stochastic model for simulating ribosome kinetics in vivo
Cited by: 14
Author(s): Eric C. Dykeman
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pcbi.1007752

Stochastic dynamics of Francisella tularensis infection and replication
Cited by: 5
Author(s): Jonathan Carruthers, Grant Lythe, Martín López‐García, Joseph Gillard, Thomas R. Laws, Roman A. Lukaszewski, Carmen Molina-Parı́s
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008703

Freedom to choose between public resources promotes cooperation
Cited by: 8
Author(s): Mohammad Salahshour
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1009070

Novelty is not surprise: Human exploratory and adaptive behavior in sequential decision-making
Cited by: 15
Author(s): Xu He, Alireza Modirshanechi, Marco P. Lehmann, Wulfram Gerstner, Michael H. Herzog
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008013

Linear-nonlinear cascades capture synaptic dynamics
Cited by: 12
Author(s): Julian Rossbroich, Daniel Trotter, John Beninger, Katalin Tóth, Richard Naud
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1007594

Discovery of hierarchical representations for efficient planning
Cited by: 40
Author(s): Momchil S. Tomov, Samyukta Yagati, Agni Kumar, Wanqian Yang, Samuel J. Gershman
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007697

Flocking in complex environments—Attention trade-offs in collective information processing
Cited by: 34
Author(s): Parisa Rahmani, Fernando Peruani, Pawel Romanczuk
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1009287

Elucidating relationships between P.falciparum prevalence and measures of genetic diversity with a combined genetic-epidemiological model of malaria
Cited by: 12
Author(s): Jason A. Hendry, Dominic Kwiatkowski, Gil McVean
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1008808

Modelling the visual world of a velvet worm
Cited by: 1
Author(s): Mikael Ljungholm, Dan-Eric Nilsson
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1007615

The drift diffusion model as the choice rule in inter-temporal and risky choice: A case study in medial orbitofrontal cortex lesion patients and controls
Cited by: 37
Author(s): Jan Peters, Mark D’Esposito
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008999

Real-time single-cell characterization of the eukaryotic transcription cycle reveals correlations between RNA initiation, elongation, and cleavage
Cited by: 22
Author(s): Jonathan Liu, Donald Hansen, Elizabeth Eck, Yang Joon Kim, Meghan A Turner, Simón Álamos, Hernán G. García
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1009047

Stochastic optimal feedforward-feedback control determines timing and variability of arm movements with or without vision
Cited by: 18
Author(s): Bastien Berret, Adrien Conessa, Nicolas Schweighofer, Etienne Burdet
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1009327

Hierarchy and control of ageing-related methylation networks
Cited by: 4
Author(s): Gergely Palla, Péter Pollner, Judit Börcsök, András Major, Béla Molnár, István Csabai
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1009288

Relaxing restrictions at the pace of vaccination increases freedom and guards against further COVID-19 waves
Cited by: 49
Author(s): Šimon Bauer, Sebastián Contreras, Jonas Dehning, Matthias Linden, Emil N. Iftekhar, Sebastian B. Mohr, Álvaro Olivera-Nappa, Viola Priesemann
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1008970

Mathematical modeling of multiple pathways in colorectal carcinogenesis using dynamical systems with Kronecker structure
Cited by: 9
Author(s): Saskia Haupt, Alexander Zeilmann, Aysel Ahadova, Hendrik Bläker, Magnus von Knebel Doeberitz, Matthias Kloor, Vincent Heuveline
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1008848

An elasticity-curvature illusion decouples cutaneous and proprioceptive cues in active exploration of soft objects
Cited by: 13
Author(s): Chang Xu, Yuxiang Wang, Gregory J. Gerling
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1007687

A model of tuberculosis clustering in low incidence countries reveals more transmission in the United Kingdom than the Netherlands between 2010 and 2015
Cited by: 6
Author(s): Ellen Brooks-Pollock, León Danon, Hester Korthals Altes, J. A. H. Davidson, A. M. T. Pollock, Dick van Soolingen, Colin Campbell, Maeve K. Lalor
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008635

Building clone-consistent ecosystem models
Cited by: 1
Author(s): Gerrit Ansmann, Tobias Bollenbach
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1007885

Standard multiscale entropy reflects neural dynamics at mismatched temporal scales: What’s signal irregularity got to do with it?
Cited by: 46
Author(s): Julian Q. Kosciessa, Niels A. Kloosterman, Douglas D. Garrett
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008136

Managing disease outbreaks: The importance of vector mobility and spatially heterogeneous control
Cited by: 4
Author(s): Jeffery Demers, Sharon Bewick, Folashade B. Agusto, Kevin A. Caillouët, William F. Fagan, Suzanne L. Robertson
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1008698

Sensing ecosystem dynamics via audio source separation: A case study of marine soundscapes off northeastern Taiwan
Cited by: 8
Author(s): Tzu‐Hao Lin, Tomonari Akamatsu, Yu Tsao
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1007765

Compounds without borders: A mechanism for quantifying complex odors and responses to scent-pollution in bumblebees
Cited by: 3
Author(s): Jordanna D. H. Sprayberry
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007791

Localized semi-nonnegative matrix factorization (LocaNMF) of widefield calcium imaging data
Cited by: 46
Author(s): Shreya Saxena, Ian Kinsella, Simon Musall, Sharon Kim, József Mészáros, David N. Thibodeaux, Carla F. Kim, John Cunningham, Elizabeth M. C. Hillman, Anne K. Churchland, Liam Paninski
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1008460

Proteostasis is adaptive: Balancing chaperone holdases against foldases
Cited by: 8
Author(s): Adam Mr de Graff, David E. Mosedale, Helen Beacock‐Sharp, Ken A. Dill, David J. Grainger
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1007893

Calibration of individual-based models to epidemiological data: A systematic review
Cited by: 22
Author(s): C. Marijn Hazelbag, Jonathan Dushoff, Emanuel M. Dominic, Zinhle E. Mthombothi, Wim Delva
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pcbi.1007655

Coding with transient trajectories in recurrent neural networks
Cited by: 32
Author(s): Giulio Bondanelli, Srdjan Ostojic
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pcbi.1008265

Short-term depression and long-term plasticity together tune sensitive range of synaptic plasticity
Cited by: 14
Author(s): Nicolas Deperrois, Michael Graupner
Software Mentions: 1
Published: about 6 years ago

10.1371/journal.pcbi.1008614

Iliski, a software for robust calculation of transfer functions
Cited by: 2
Author(s): Ali-Kemal Aydin, William D. Haselden, Julie Dang, Patrick J. Drew, Serge Charpak, Davide Boido
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1009322

Neurally-constrained modeling of human gaze strategies in a change blindness task
Cited by: 1
Author(s): Akshay Jagatap, Simran Purokayastha, Hritik Jain, Devarajan Sridharan
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1007675

Robust point-process Granger causality analysis in presence of exogenous temporal modulations and trial-by-trial variability in spike trains
Cited by: 5
Author(s): Antonino Casile, Rose T. Faghih, Emery N. Brown
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1008621

Neural manifold under plasticity in a goal driven learning behaviour
Cited by: 30
Author(s): Barbara Feulner, Claudia Clopath
Software Mentions: 1
Published: almost 6 years ago

10.1371/journal.pcbi.1007311

Inferring reaction network structure from single-cell, multiplex data, using toric systems theory
Cited by: 16
Author(s): Shu Wang, Jia-Ren Lin, Eduardo D. Sontag, Peter K. Sorger
Software Mentions: 1
Published: almost 7 years ago

10.1371/journal.pcbi.1009245

Improving the understanding of cytoneme-mediated morphogen gradients by in silico modeling
Cited by: 7
Author(s): Adrián Aguirre-Tamaral, Isabel Guerrero
Software Mentions: 1
Published: over 5 years ago

10.1371/journal.pcbi.1009278

The evolutionary history of topological variations in the CPA/AT transporters
Cited by: 2
Author(s): G. Sudha, Claudio Bassot, John Lamb, Nanjiang Shu, Yan Huang, Arne Elofsson
Software Mentions: 1
Published: about 5 years ago

10.1371/journal.pcbi.1007506

Predicting lymphatic filariasis elimination in data-limited settings: A reconstructive computational framework for combining data generation and model discovery
Cited by: 2
Author(s): Morgan E. Smith, Emily Griswold, Bhavna Singh, Emmanuel S. Miri, Abel Eigege, Solomon Adelamo, John Umaru, Kenrick Nwodu, Yohanna Sambo, Jonathan Kadimbo, Jacob Danyobi, Frank O. Richards, Edwin Michael
Software Mentions: 1
Published: over 6 years ago

Projects: pypi: PACE

Enhanced Analysis

Science Score: 90/100

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Papers Mentioning PACE 13,779