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ORCIDPLoS Computational Biology, Volume 21
Volume 21, Number 1, 2025
- Alice Bruel
, Lina Bacha, Emma Boehly, Constance De Trogoff, Luca Represa, Grégoire Courtine, Auke Jan Ijspeert:
Role and modulation of various spinal pathways for human upper limb control in different gravity conditions. 1012069 - Alessandro Pazzaglia, Andrej Bicanski, Andrea Ferrario, Jonathan Arreguit, Dimitri Ryczko, Auke Jan Ijspeert:
Balancing central control and sensory feedback produces adaptable and robust locomotor patterns in a spiking, neuromechanical model of the salamander spinal cord. 1012101 - Glen McLachlan, Piotr Majdak, Jonas Reijniers, Michael Mihocic, Herbert Peremans:
Bayesian active sound localisation: To what extent do humans perform like an ideal-observer? 1012108 - Luis L. Fonseca, Lucas Böttcher, Borna Mehrad, Reinhard C. Laubenbacher:
Optimal control of agent-based models via surrogate modeling. 1012138 - Evan Gorstein, Rosa Aghdam, Claudia R. Solís-Lemus:
HighDimMixedModels.jl: Robust high-dimensional mixed-effects models across omics data. 1012143 - Magnus Pirovino, Christian Iseli, Joseph A. Curran, Bernard Conrad:
Biomathematical enzyme kinetics model of prebiotic autocatalytic RNA networks: degenerating parasite-specific hyperparasite catalysts confer parasite resistance and herald the birth of molecular immunity. 1012162 - Max de Rooij, Balázs Erdos, Natal A. W. van Riel, Shauna D. O'Donovan:
Physiology-informed regularisation enables training of universal differential equation systems for biological applications. 1012198 - Alexander G. Ginsberg, Scott F. Lempka, Bo Duan, Victoria Booth, Jennifer Crodelle:
Mechanisms for dysregulation of excitatory-inhibitory balance underlying allodynia in dorsal horn neural subcircuits. 1012234 - Xuexing Du, Jennifer Crodelle, Victor J. Barranca, Songting Li, Yunzhu Shi, Shangbang Gao, Douglas Zhou:
Biophysical modeling and experimental analysis of the dynamics of C. elegans body-wall muscle cells. 1012318 - Oane Gros, Josiah B. Passmore, Noa O. Borst, Dominik Kutra, Wilco Nijenhuis, Timothy Fuqua, Lukas C. Kapitein, Justin M. Crocker, Anna Kreshuk, Simone Köhler:
Spherical harmonics texture extraction for versatile analysis of biological objects. 1012349 - Chunhong Long, Hongqiong Liang, Biao Wan:
DNA spontaneously wrapping around a histone core prefers negative supercoiling: A Brownian dynamics study. 1012362 - Kwang Su Kim, Masashi Iwamoto, Kosaku Kitagawa, Hyeongki Park, Sanae Hayashi, Senko Tsukuda, Takeshi Matsui, Masanori Atsukawa, Kentaro Matsuura, Natthaya Chuaypen, Pisit Tangkijvanich, Lena Allweiss, Takara Nishiyama, Naotoshi Nakamura, Yasuhisa Fujita, Eiryo Kawakami, Shinji Nakaoka, Masamichi Muramatsu, Kazuyuki Aihara, Takaji Wakita, Alan S. Perelson, Maura Dandri, Koichi Watashi, Shingo Iwami, Yasuhito Tanaka:
Prediction of cccDNA dynamics in hepatitis B patients by a combination of serum surrogate markers. 1012615 - Yulong Kan, Yunjing Qi, Zhongxiao Zhang, Xikeng Liang, Weihao Wang, Shuilin Jin:
Integration of unpaired single cell omics data by deep transfer graph convolutional network. 1012625 - Kevin P. Greenman, Ava P. Amini, Kevin K. Yang:
Benchmarking uncertainty quantification for protein engineering. 1012639 - Amrit Bagchi, Bapi Sarker, Jialiang Zhang, Marcus Foston, Amit Pathak:
Fast yet force-effective mode of supracellular collective cell migration due to extracellular force transmission. 1012664 - Arif Badrou, Crystal A. Mariano, Gustavo O. Ramirez, Matthew Shankel, Nuno Rebelo, Mona Eskandari:
Towards constructing a generalized structural 3D breathing human lung model based on experimental volumes, pressures, and strains. 1012680 - Julien Laussu, Deborah Michel, Léa Magne, Stéphane Segonds, Steven Marguet, Dimitri Hamel, Muriel Quaranta-Nicaise, Frederick Barreau, Emmanuel Mas, Vincent Velay, Florian Bugarin, Audrey Ferrand:
Deciphering the interplay between biology and physics with a finite element method-implemented vertex organoid model: A tool for the mechanical analysis of cell behavior on a spherical organoid shell. 1012681 - Obaï B. K. Ali, Alexandre Vidal, Christophe Grova, Habib Benali:
Dialogue mechanisms between astrocytic and neuronal networks: A whole-brain modelling approach. 1012683 - Hidekazu Hishinuma, Hisako Takigawa-Imamura, Takashi Miura:
Data-driven discovery and parameter estimation of mathematical models in biological pattern formation. 1012689 - Azusa Tanaka, Yasuhiro Ishitsuka, Hiroki Ohta, Norihiro Takenouchi, Masanori Nakagawa, Ki-Ryang Koh, Chiho Onishi, Hiromitsu Tanaka, Akihiro Fujimoto, Jun-ichirou Yasunaga, Masao Matsuoka:
Integrative analysis of ATAC-seq and RNA-seq for cells infected by human T-cell leukemia virus type 1. 1012690 - Remy Ben Messaoud, Vincent Le Du, Camile Bousfiha, Marie-Constance Corsi, Juliana Gonzalez-Astudillo, Brigitte Charlotte Kaufmann, Tristan Venot, Baptiste Couvy-Duchesne, Lara Migliaccio, Charlotte Rosso, Paolo Bartolomeo, Mario Chavez, Fabrizio de Vico Fallani:
Low-dimensional controllability of brain networks. 1012691 - Ismael Kherroubi Garcia, Christopher Erdmann, Sandra Gesing, C. Michael Barton, Lauren Cadwallader, Geerten Hengeveld, Christine R. Kirkpatrick, Kathryn Knight, Carsten Lemmen, Rebecca Ringuette, Qing Zhan, Melissa Harrison, Feilim Mac Gabhann, Natalie Meyers, Cailean Osborne, Charlotte Till, Paul R. Brenner, Matt Buys, Min Chen, Allen Lee, Jason A. Papin, Yuhan Rao:
Ten simple rules for good model-sharing practices. 1012702 - Soham Mandal, Ann-Marie Baker, Trevor A. Graham, Konstantin Bräutigam:
The tumour histopathology "glossary" for AI developers. 1012708 - Asgeir Kobro-Flatmoen, Stig W. Omholt:
Intraneuronal binding of amyloid beta with reelin - Implications for the onset of Alzheimer's disease. 1012709 - Luca Oneto, Davide Chicco:
Eight quick tips for biologically and medically informed machine learning. 1012711 - Mohammad Neamul Kabir, Li Rong Wang, Wilson Wen Bin Goh:
Exploiting the similarity of dissimilarities for biomedical applications and enhanced machine learning. 1012716 - Shoutik Mukherjee, Behtash Babadi, Shihab A. Shamma:
Sparse high-dimensional decomposition of non-primary auditory cortical receptive fields. 1012721 - Nan Wu, Zhi-Chao Xu, Kai-Dong Du, Shen Huang, Naohiro Kobayashi, Yutaka Kuroda, Yan-Hong Bai:
A Structural Model of Truncated Gaussia princeps Luciferase Elucidating the Crucial Catalytic Function of No.76 Arginine towards Coelenterazine Oxidation. 1012722 - Francisco Páscoa dos Santos, Paul F. M. J. Verschure:
Excitatory-inhibitory homeostasis and bifurcation control in the Wilson-Cowan model of cortical dynamics. 1012723 - María Ruiz Ortega, Mikhail V. Pogorelyy, Anastasia A. Minervina, Paul G. Thomas, Thierry Mora, Aleksandra M. Walczak:
Learning predictive signatures of HLA type from T-cell repertoires. 1012724 - Zeinab Mousavi, Marios Arvanitis, Thuyvy Duong, Jennifer A. Brody, Alexis Battle, Nona Sotoodehnia, Ali Shojaie, Dan E. Arking, Joel S. Bader:
Prioritization of causal genes from genome-wide association studies by Bayesian data integration across loci. 1012725 - Diego Tec-Campos, Juan D. Tibocha-Bonilla, Celina Jiang, Anurag Passi, Deepan Thiruppathy, Cristal Zuñiga, Camila Posadas, Alejandro Zepeda, Karsten Zengler:
A genome-scale metabolic model for the denitrifying bacterium Thauera sp. MZ1T accurately predicts degradation of pollutants and production of polymers. 1012736 - Alejandro Feito, Ignacio Sanchez-Burgos, Ignacio Tejero, Eduardo Sanz, Antonio Rey, Rosana Collepardo-Guevara, Andres R. Tejedor, Jorge R. Espinosa:
Benchmarking residue-resolution protein coarse-grained models for simulations of biomolecular condensates. 1012737 - Xiaoyi Wang, Zhen Jin:
Multi-region infectious disease prediction modeling based on spatio-temporal graph neural network and the dynamic model. 1012738 - Lulu Pan, Qian Gao, Kecheng Wei, Yongfu Yu, Guoyou Qin, Tong Wang:
A robust transfer learning approach for high-dimensional linear regression to support integration of multi-source gene expression data. 1012739 - Nicole M. Moody, Cole M. Williams, Sohini Ramachandran, Matthew J. Fuxjager:
Social mates dynamically coordinate aggressive behavior to produce strategic territorial defense. 1012740 - Natalie R. Davidson, Fan Zhang, Casey S. Greene:
BuDDI: Bulk Deconvolution with Domain Invariance to predict cell-type-specific perturbations from bulk. 1012742 - Peng Ren, Xuehua Cui, Xia Liang:
Connectome-based biophysical models of pathological protein spreading in neurodegenerative diseases. 1012743 - Chuanmei Bi, Yong Shi, Junfeng Xia, Zhen Liang, Zhiqiang Wu, Kai Xu, Na Cheng:
Ensemble learning-based predictor for driver synonymous mutation with sequence representation. 1012744 - Jiang Mao, Constantin A Rothkopf, Alan A. Stocker:
Adaptation optimizes sensory encoding for future stimuli. 1012746 - Yunyun Dong, Yuanrong Zhang, Yuhua Qian, Yiming Zhao, Ziting Yang, Xiufang Feng:
ASGCL: Adaptive Sparse Mapping-based graph contrastive learning network for cancer drug response prediction. 1012748 - Lucas Böttcher, Maria R. D'Orsogna, Tom Chou:
Aggregating multiple test results to improve medical decision-making. 1012749 - Xu Shi, Xiao Wang, Lu Jin, Leena Halakivi-Clarke, Robert Clarke, Andrew F. Neuwald, Jianhua Xuan:
Bayesian identification of differentially expressed isoforms using a novel joint model of RNA-seq data. 1012750 - Pranjul Gupta, Katharina Dobs:
Human-like face pareidolia emerges in deep neural networks optimized for face and object recognition. 1012751 - Meichen Fang, Gennady Gorin, Lior Pachter:
Trajectory inference from single-cell genomics data with a process time model. 1012752 - Toviah Moldwin, Li Shay Azran, Idan Segev:
The calcitron: A simple neuron model that implements many learning rules via the calcium control hypothesis. 1012754 - Ahmed Daoud, Asa Ben-Hur:
The role of chromatin state in intron retention: A case study in leveraging large scale deep learning models. 1012755 - Edoardo Saccenti, Cristina Furlan:
Ten simple rules to complete successfully a computational MSc thesis project. 1012756 - Xiaojun Wu, Meilu McDermott, Adam L. Maclean:
Data-driven model discovery and model selection for noisy biological systems. 1012762 - Fernando A. Najman, Antonio Galves, Marcela Svarc, Claudia D. Vargas:
Extracting the fingerprints of sequences of random rhythmic auditory stimuli from electrophysiological data. 1012765 - Matthew Gerry, Duncan Kirby, Boian S. Alexandrov, Dvira Segal, Anton Zilman:
Specificity and tunability of efflux pumps: A new role for the proton gradient? 1012772 - Giovanni di Sarra, Siddharth Jha, Yasser Roudi:
The role of oscillations in grid cells' toroidal topology. 1012776 - Phoebe Asplin, Matt J. Keeling, Rebecca Mancy, Edward M. Hill:
Correction: Epidemiological and health economic implications of symptom propagation in respiratory pathogens: A mathematical modelling investigation. 1012791
Volume 21, Number 2, 2025
- Alexandra Teslya, Janneke C. M. Heijne, Maarten F. Schim van der Loeff, Ard van Sighem, Jacob Aiden Roberts, Maartje Dijkstra, Godelieve J. de Bree, Axel J. Schmidt, Kai J. Jonas, Mirjam E. Kretzschmar, Ganna Rozhnova:
Impact of increased diagnosis of early HIV infection and immediate antiretroviral treatment initiation on HIV transmission among men who have sex with men in the Netherlands. 1012055 - Christina Y. Lee, Sina Bonakdar, Kelly B. Arnold:
An in silico framework for the rational design of vaginal probiotic therapy. 1012064 - Alexa Aucoin, Kevin K. Lin, Katalin M. Gothard:
Detection of latent brain states from spontaneous neural activity in the amygdala. 1012247 - Yanru Jiang, Rick Dale:
Mapping the learning curves of deep learning networks. 1012286 - Alexander R. Kaye, Giorgio Guzzetta, Michael J. Tildesley, Robin N. Thompson:
Quantifying infectious disease epidemic risks: A practical approach for seasonal pathogens. 1012364 - Sara Ershadmanesh, Sahar Rajabi, Reza Rostami, Rani Moran, Peter Dayan:
Noradrenergic and Dopaminergic modulation of meta-cognition and meta-control. 1012675 - Mai Chan Lau, Jennifer Borowsky, Juha P. Väyrynen, Koichiro Haruki, Melissa Zhao, Andressa Dias Costa, Simeng Gu, Annacarolina Da Silva, Tomotaka Ugai, Kota Arima, Minh N. Nguyen, Yasutoshi Takashima, Joe Yeong, David Tai, Tsuyoshi Hamada, Jochen K. Lennerz, Charles S. Fuchs, Catherine J. Wu, Jeffrey A. Meyerhardt, Shuji Ogino, Jonathan A. Nowak:
Tumor-immune partitioning and clustering algorithm for identifying tumor-immune cell spatial interaction signatures within the tumor microenvironment. 1012707 - Xueda Shen, Aaron Rumack, Bryan Wilder, Ryan J. Tibshirani:
Nowcasting reported covid-19 hospitalizations using de-identified, aggregated medical insurance claims data. 1012717 - Timothée Poisot, Daniel J. Becker, Cole B. Brookson, Ellie Graeden, Sadie J. Ryan, Gemma Turon, Colin J. Carlson:
Ten quick tips to build a Model Life Cycle. 1012731 - Jan-Simon Baasner, Andreas Rempel, Dakota Howard, Boas Pucker:
NAVIP: Unraveling the influence of neighboring small sequence variants on functional impact prediction. 1012732 - Luca Musella, Alejandro Afonso Castro, Xin Lai, Max Widmann, Julio Vera:
ENQUIRE automatically reconstructs, expands, and drives enrichment analysis of gene and Mesh co-occurrence networks from context-specific biomedical literature. 1012745 - Eliezyer Fermino de Oliveira, Pranjal Garg, Jens Hjerling-Leffler, Renata Batista-Brito, Lucas Sjulson:
Identifying patterns differing between high-dimensional datasets with generalized contrastive PCA. 1012747 - Grace C. McKenzie-Smith, Scott W. Wolf, Julien F. Ayroles, Joshua W. Shaevitz:
Capturing continuous, long timescale behavioral changes in Drosophila melanogaster postural data. 1012753 - Dennis Khodasevich, Nina Holland, Lars van der Laan, Andrés Cárdenas:
A SuperLearner-based pipeline for the development of DNA methylation-derived predictors of phenotypic traits. 1012768 - Jordan Childs, Tiago Bernardino Gomes, Amy E. Vincent, Andrew Golightly, Conor Lawless:
Bayesian classification of OXPHOS deficient skeletal myofibres. 1012770 - Rui Miao, Hao-Yang Yu, Bing-Jie Zhong, Hong-Xia Sun, Qiang Xia:
AWGE-ESPCA: An edge sparse PCA model based on adaptive noise elimination regularization and weighted gene network for Hermetia illucens genomic data analysis. 1012773 - Nathanaël Hozé, Margarita Pons-Salort, C. Jessica E. Metcalf, Michael White, Henrik Salje, Simon Cauchemez:
RSero: A user-friendly R package to reconstruct pathogen circulation history from seroprevalence studies. 1012777 - Wenxuan Li, Xu Chen, Suli Liu, Chiyu Zhang, Guyue Liu:
Using a multi-strain infectious disease model with physical information neural networks to study the time dependence of SARS-CoV-2 variants of concern. 1012778 - Justin Sheen, Lee Kennedy-Shaffer, Michael Z. Levy, C. Jessica E. Metcalf:
Design of field trials for the evaluation of transmissible vaccines in animal populations. 1012779 - Brinkley Raynor, Elvis W. Díaz, Micaela De la Puente-León, Maria T. Rieders, Sergio E. Recuenco, Michael Z. Levy, Ricardo Castillo-Neyra:
Challenging a paradigm: Staggered versus single-pulse mass dog vaccination strategy for rabies elimination. 1012780 - Rachel Russell, Nik J. Cunniffe:
Optimal control prevents itself from eradicating stochastic disease epidemics. 1012781 - Shan Gao, Amit K. Chakraborty, Russell Greiner, Mark A. Lewis, Hao Wang:
Early detection of disease outbreaks and non-outbreaks using incidence data: A framework using feature-based time series classification and machine learning. 1012782 - Matthias C. Rillig:
Ten simple rules for fostering creativity in research labs. 1012788 - Lars Berling, Jonathan Klawitter, Remco R. Bouckaert, Dong Xie, Alex Gavryushkin, Alexei J. Drummond:
Accurate Bayesian phylogenetic point estimation using a tree distribution parameterized by clade probabilities. 1012789 - Belinda Lombard, Harry Moultrie, Juliet R. C. Pulliam, Cari van Schalkwyk:
Simulation-based validation of a method to detect changes in SARS-CoV-2 reinfection risk. 1012792 - Jacopo Marchi, Chau Nguyen Ngoc Minh, Laurent Debarbieux, Joshua S. Weitz:
Multi-strain phage induced clearance of bacterial infections. 1012793 - Niklas Brake, Anmar Khadra:
Contributions of action potentials to scalp EEG: Theory and biophysical simulations. 1012794 - Pasquale Casaburi, Lorenzo Dall'Amico, Nicolò Gozzi, Kyriaki Kalimeri, Anna Sapienza, Rossano Schifanella, T. Di Matteo, Leo Ferres, Mattia Mazzoli:
Resilience of mobility network to dynamic population response across COVID-19 interventions: Evidences from Chile. 1012802 - Xianghao Zhan, Qinmei Xu, Yuanning Zheng, Guangming Lu, Olivier Gevaert:
Reliability-enhanced data cleaning in biomedical machine learning using inductive conformal prediction. 1012803 - Vemund Sigmundson Schøyen, Kosio Beshkov, Markus Pettersen, Erik Hermansen, Konstantin Holzhausen, Anders Malthe-Sørenssen, Marianne Fyhn, Mikkel Elle Lepperød:
Hexagons all the way down: grid cells as a conformal isometric map of space. 1012804 - Christopher Graser, Takako Fujiwara-Greve, Julián García, Matthijs van Veelen:
Repeated games with partner choice. 1012810 - Shan Zhong, Nader Pouratian, Vassilios N. Christopoulos:
Computational mechanism underlying switching of motor actions. 1012811 - Jamel Simpson, Peter M. Kasson:
Structural prediction of chimeric immunogen candidates to elicit targeted antibodies against betacoronaviruses. 1012812 - Shun Wang, Jinzhi Lei, Xiufen Zou, Suoqin Jin:
Integrating multiscale mathematical modeling and multidimensional data reveals the effects of epigenetic instability on acquired drug resistance in cancer. 1012815 - Rodrigo Osuna-Orozco, Edward Castillo, Kameron Decker Harris, Samantha R. Santacruz:
Identification of recurrent dynamics in distributed neural populations. 1012816 - Ines S. C. Baptista, Suchintak Dash, Amir M. Arsh, Vinodh Kandavalli, Carlo Maria Scandolo, Barry C. Sanders, Andre S. Ribeiro:
Bimodality in E. coli gene expression: Sources and robustness to genome-wide stresses. 1012817 - Fatemeh Kamali, Amir Abolfazl Suratgar, Mohammad Bagher Menhaj, Reza Abbasi-Asl:
Compression-enabled interpretability of voxelwise encoding models. 1012822 - Nicolas Banholzer, Keren Middelkoop, Juane Leukes, Ernest Weingartner, Remo Schmutz, Kathrin Zürcher, Matthias Egger, Robin Wood, Lukas Fenner:
Estimating Mycobacterium tuberculosis transmission in a South African clinic: Spatiotemporal model based on person movements. 1012823 - Paulina N. Smaruj, Fahad Kamulegeya, David R. Kelley, Geoffrey Fudenberg:
Interpreting the CTCF-mediated sequence grammar of genome folding with AkitaV2. 1012824 - Daipeng Chen, Xinxin Liu, Haijiang Wang, Roeland M. H. Merks, David A. Baker:
A model of Notch signalling control of angiogenesis: Evidence of a role for Notch ligand heterodimerization. 1012825 - Subhadip Biswas, Davit A. Potoyan:
Decoding biomolecular condensate dynamics: an energy landscape approach. 1012826 - Laura M. Gunsalus, Michael J. Keiser, Katherine S. Pollard:
ChromaFactor: Deconvolution of single-molecule chromatin organization with non-negative matrix factorization. 1012841 - Pawel Nalecz-Jawecki, Przemyslaw Szyc, Frederic Grabowski, Marek Kochanczyk, Tomasz Lipniacki:
Information transmission in a cell monolayer: A numerical study. 1012846 - Jonathon Mellor, Maria L. Tang, Emilie Finch, Rachel Christie, Oliver Polhill, Christopher E. Overton, Ann Hoban, Amy Douglas, Sarah R. Deeny, Thomas Ward:
An application of nowcasting methods: Cases of norovirus during the winter 2023/2024 in England. 1012849 - Paul Henriot, Mohamed El-Kassas, Wagida Anwar, Samia A. Girgis, Maha El Gaafary, Kévin Jean, Laura Temime:
An agent-based model to simulate the transmission dynamics of bloodborne pathogens within hospitals. 1012850 - Shunsuke A. Sakai, Ryosuke Nomura, Satoi Nagasawa, Sunggi Chi, Ayako Suzuki, Yutaka Suzuki, Mitsuho Imai, Yoshiaki Nakamura, Takayuki Yoshino, Shumpei Ishikawa, Katsuya Tsuchihara, Shun-Ichiro Kageyama, Riu Yamashita:
SpatialKNifeY (SKNY): Extending from spatial domain to surrounding area to identify microenvironment features with single-cell spatial omics data. 1012854
Volume 21, Number 3, 2025
- Zachary B. Haiman, Alicia Key, Angelo D'alessandro, Bernhard O. Palsson:
RBC-GEM: A genome-scale metabolic model for systems biology of the human red blood cell. 1012109 - Meng Wang, Jonathan Patsenker, Henry Li, Yuval Kluger, Steven H. Kleinstein:
Supervised fine-tuning of pre-trained antibody language models improves antigen specificity prediction. 1012153 - Simonida Zehr, Sebastian Wolf, Thomas Oellerich, Matthias S. Leisegang, Ralf P. Brandes, Marcel H. Schulz, Timothy Warwick:
GeneCOCOA: Detecting context-specific functions of individual genes using co-expression data. 1012278 - Joseph Masison, Pedro Mendes:
Mathematical modeling reveals ferritin as the strongest cellular driver of dietary iron transfer block in enterocytes. 1012374 - Emma Von Hoene, Amira Roess, Hamdi Kavak, Taylor Anderson:
Synthetic population generation with public health characteristics for spatial agent-based models. 1012439 - Nachshon Korem, Or Duek, Ruonan Jia, Emily Wertheimer, Sierra Metviner, Michael Grubb, Ifat Levy:
Modeling decision-making under uncertainty with qualitative outcomes. 1012440 - Tianai Wang, Christine Quast, Florian Bönner, Malte Kelm, Tobias Zeus, Teresa Lemainque, Ulrich Steinseifer, Michael Neidlin:
Investigation of hemodynamic bulk flow patterns caused by aortic stenosis using a combined 4D Flow MRI-CFD framework. 1012467 - Raheel Asghar, Nan Wu, Noman Ali, Yulei Wang, Mahinur Akkaya:
Computational studies reveal structural characterization and novel families of Puccinia striiformis f. sp. tritici effectors. 1012503 - Larissa M. Oprysk, Maribel Vazquez, Troy Shinbrot:
Internal cohesion gradient as a novel mechanism of collective cell migration. 1012769 - Joseph A. Heng, Michael Woodford, Rafael Polanía:
Efficient numerosity estimation under limited time. 1012790 - Giuseppe de Alteriis, Oliver Sherwood, Alessandro Ciaramella, Robert Leech, Joana Cabral, Federico E. Turkheimer, Paul Expert:
DySCo: A general framework for dynamic functional connectivity. 1012795 - Anna Posfai, Juannan Zhou, David M. McCandlish, Justin B. Kinney:
Gauge fixing for sequence-function relationships. 1012818 - Lilly May, Alice Dauphin, Julijana Gjorgjieva:
Pre-training artificial neural networks with spontaneous retinal activity improves motion prediction in natural scenes. 1012830 - André Victor Ribeiro Amaral, Daniel Wolffram, Paula Moraga, Johannes Bracher:
Post-processing and weighted combination of infectious disease nowcasts. 1012836 - Carla M. Kumbale, Qiang Zhang, Eberhard O. Voit:
Analysis of systemic effects of dioxin on human health through template-and-anchor modeling. 1012840 - Simón Poblete, Mikolaj Mlynarczyk, Marta Szachniuk:
Unknotting RNA: A method to resolve computational artifacts. 1012843 - Elsje J. Burgers, Raju P. Sharma, Carl Joshua S. Eugenio, Muriel M. Heldring, Lukas S. Wijaya, Bob van de Water, Joost B. Beltman:
Computational modelling identifies primary mediators of crosstalk between DNA damage and oxidative stress responses. 1012844 - Callum Gray, Samir Chitnavis, Tamara Buja, Christopher D. P. Duffy:
Predicting the diversity of photosynthetic light-harvesting using thermodynamics and machine learning. 1012845 - Hua Tan, Valer Gotea, Sushil K. Jaiswal, Nancy E. Seidel, David O. Holland, Kevin Fedkenheuer, Abdel G. Elkahloun, Sara R. Bang-Christensen, Laura Elnitski:
iSoMAs: Finding isoform expression and somatic mutation associations in human cancers. 1012847 - Yifan Yao, Scott D. Pauls, Duncan K. Foley, Tomoko Yoshikawa, Sato Honma, Ken-ichi Honma, Ellie McVeigh, Nicolas C. Foley, Rae Silver:
Suprachiasmatic nucleus-wide estimation of oscillatory temporal dynamics. 1012855 - Charlotte Soneson, Lori A. Shepherd, Marcel Ramos, Kevin C. Rue-Albrecht, Johannes Rainer, Hervé Pagès, Vincent J. Carey:
Eleven quick tips for writing a Bioconductor package. 1012856 - Barry Ryan, Riccardo Marioni, T. Ian Simpson:
An integrative network approach for longitudinal stratification in Parkinson's disease. 1012857 - Xinyu Han, Kai Song:
TphPMF: A microbiome data imputation method using hierarchical Bayesian Probabilistic Matrix Factorization. 1012858 - Wei-Yu Lin, Melissa Kartawinata, Bethany R. Jebson, Restuadi Restuadi, Hannah Peckham, Anna Radziszewska, Claire T. Deakin, Coziana Ciurtin, Lucy Wedderburn, Chris Wallace:
Penalised regression improves imputation of cell-type specific expression using RNA-seq data from mixed cell populations compared to domain-specific methods. 1012859 - Julian Heidecke, Jonas Wallin, Peter Fransson, Pratik Singh, Henrik Sjödin, Pascale Claire Stiles, Marina Treskova, Joacim Röcklov:
Uncovering temperature sensitivity of West Nile virus transmission: Novel computational approaches to mosquito-pathogen trait responses. 1012866 - Evangelos Sigalas, Camilo Libedinsky:
Mixed recurrent connectivity in primate prefrontal cortex. 1012867 - Evangelia Vayena, Lea Fuchs, Homa Mohammadi Peyhani, Konrad Lagoda, Bidong D. Nguyen, Wolf-Dietrich Hardt, Vassily Hatzimanikatis:
Metabolic network reconstruction as a resource for analyzing Salmonella Typhimurium SL1344 growth in the mouse intestine. 1012869 - Zhengdong Wang, Yifeixue Yang, Ziyi Huang, Wanyun Zhao, Kaiqiang Su, Hengcheng Zhu, Dazhi Yin:
Exploring the transmission of cognitive task information through optimal brain pathways. 1012870 - Guihua Wang, Dan Zhang, Zhifeng He, Bin Mao, Xiao Hu, Li Chen, Qingxin Yang, Zhen Zhou, Yating Zhang, Kepan Linghu, Chao Tang, Zijie Xu, Defu Liu, Junwei Song, Huiying Wang, Yishan Lin, Ruihan Li, Jing-Wen Lin, Lu Chen:
Machine learning-based prediction reveals kinase MAP4K4 regulates neutrophil differentiation through phosphorylating apoptosis-related proteins. 1012877 - Alma Beatrix Stier, Paolo Bonaiuti, János Juhász, Fridolin Gross, Andrea Ciliberto:
lncreased risk of slippage upon disengagement of the mitotic checkpoint. 1012879 - Russell Dinnage, Marian Kleineberg:
Generative AI extracts ecological meaning from the complex three dimensional shapes of bird bills. 1012887 - Oliver Eales, Freya M. Shearer, James M. McCaw:
How immunity shapes the long-term dynamics of influenza H3N2. 1012893 - Huu Hoang, Shinichiro Tsutsumi, Masanori Matsuzaki, Masanobu Kano, Keisuke Toyama, Kazuo Kitamura, Mitsuo Kawato:
Predictive reward-prediction errors of climbing fiber inputs integrate modular reinforcement learning with supervised learning. 1012899 - Yang Wu, Ming Chen, Yufang Qin:
Anticancer drug response prediction integrating multi-omics pathway-based difference features and multiple deep learning techniques. 1012905 - Pramod Shinde, Lisa Willemsen, Michael Anderson, Minori Aoki, Saonli Basu, Julie G. Burel, Peng Cheng, Souradipto Ghosh Dastidar, Aidan Dunleavy, Tal Einav, Jamie Forschmiedt, Slim Fourati, Javier Garcia, William Gibson, Jason A. Greenbaum, Leying Guan, Weikang Guan, Jeremy P. Gygi, Brendan Ha, Joe Hou, Jason Hsiao, Yunda Huang, Rick Jansen, Bhargob Kakoty, Zhiyu Kang, James J. Kobie, Mari Kojima, Anna Konstorum, Jiyeun Lee, Sloan A. Lewis, Aixin Li, Eric F. Lock, Jarjapu Mahita, Marcus Mendes, Hailong Meng, Aidan Neher, Somayeh Nili, Lars Rønn Olsen, Shelby Orfield, James A. Overton, Nidhi Pai, Cokie Parker, Brian Qian, Mikkel Rasmussen, Joaquin Reyna, Eve Richardson, Sandra Safo, Josey Sorenson, Aparna Srinivasan, Nicola Thrupp, Rashmi Tippalagama, Raphael Trevizani, Steffen Ventz, Jiuzhou Wang, Cheng-Chang Wu, Ferhat Ay, Barry Grant, Steven H. Kleinstein, Bjoern Peters:
Putting computational models of immunity to the test - An invited challenge to predict B.pertussis vaccination responses. 1012927
Volume 21, Number 4, 2025
- Fillipe Georgiou, Camille Buhl, J. Edward F. Green, Bishnu P. Lamichhane, Ngamta Thamwattana:
Including population and environmental dynamic heterogeneities in continuum models of collective behaviour with applications to locust foraging and group structure. 1011469 - Weixuan Liu, Katherine A. Pratte, Peter J. Castaldi, Craig P. Hersh, Russell P. Bowler, Farnoush Banaei Kashani, Katerina J. Kechris:
A generalized higher-order correlation analysis framework for multi-omics network inference. 1011842 - José A. Carrillo, Hideki Murakawa, Makoto Sato, Miaoxing Wang:
A new paradigm considering multicellular adhesion, repulsion and attraction represent diverse cellular tile patterns. 1011909 - Giulia Moreni, Rares A. Dorcioman, Cyriel M. A. Pennartz, Jorge F. Mejías:
Cell-type-specific firing patterns in a V1 cortical column model depend on feedforward and feedback-driven states. 1012036 - Lana Minier, Jérémy Rouch, Bamdad Sabbagh, Frédéric Bertucci, Eric Parmentier, David Lecchini, Frédéric Sèbe, Nicolas Mathevon, Rémi Emonet:
Visualization and quantification of coral reef soundscapes using CoralSoundExplorer software. 1012050 - Douglas Blackiston, Hannah Dromiack, Caitlin Grasso, Thomas F. Varley, Douglas G. Moore, Krishna Kannan Srinivasan, Olaf Sporns, Josh C. Bongard, Michael Levin, Sara Imari Walker:
Revealing non-trivial information structures in aneural biological tissues via functional connectivity. 1012149 - Sharmilla Chandrasegaran, James P. Sluka, Daryl P. Shanley:
Modelling the spatiotemporal dynamics of senescent cells in wound healing, chronic wounds, and fibrosis. 1012298 - Torbjørn V. Ness, Tom Tetzlaff, Gaute T. Einevoll, David Dahmen:
On the validity of electric brain signal predictions based on population firing rates. 1012303 - Johane Bracamonte, Lionel Watkins, Betty Pat, Louis J. Dell'Italia, Jeffrey J. Saucerman, Jeffrey W. Holmes:
Contributions of mechanical loading and hormonal changes to eccentric hypertrophy during volume overload: A Bayesian analysis using logic-based network models. 1012390 - Xiaoyuan Liu, Jonathan W. Pitchford, George W. A. Constable:
Cell size and selection for stress-induced cell fusion in unicellular eukaryotes. 1012418 - Pascal Mamassian, Vincent de Gardelle:
The confidence-noise confidence-boost (CNCB) model of confidence rating data. 1012451 - Chenyang Gu, Shoji Takada, Giovanni B. Brandani, Tsuyoshi Terakawa:
Molecular dynamics simulations of human cohesin subunits identify DNA binding sites and their potential roles in DNA loop extrusion. 1012493 - Chengze Shen, Eleanor Wedell, Mihai Pop, Tandy J. Warnow:
TIPP3 and TIPP3-fast: Improved abundance profiling in metagenomics. 1012593 - Jack Stein, D'artagnan Greene, Flavio H. Fenton, Yohannes Shiferaw:
Mechanism of Arrhythmogenesis Driven by Early After Depolarizations in Cardiac Tissue. 1012635 - Grant Greene, Ian Zonfa, Erzsébet Ravasz Regan:
A Boolean network model of hypoxia, mechanosensing and TGF-β signaling captures the role of phenotypic plasticity and mutations in tumor metastasis. 1012735 - Oliver J. Brady, Leonardo S. Bastos, Jamie M. Caldwell, Simon Cauchemez, Hannah E. Clapham, Illaria Dorigatti, Katy A. M. Gaythorpe, Wenbiao Hu, Laith Hussain-Alkhateeb, Michael A. Johansson, Ahyoung Lim, Velma K. Lopez, Richard James Maude, Jane P. Messina, Erin A. Mordecai, A. Townsend Peterson, Isabel Rodriquez-Barraquer, Ingrid B. Rabe, Diana P. Rojas, Sadie J. Ryan, Henrik Salje, Jan C. Semenza, Quan Minh Tran:
Why the growth of arboviral diseases necessitates a new generation of global risk maps and future projections. 1012771 - Caesar Tawfeeq, Jiyao Wang, Umesh Khaniya, Thomas Madej, James Song, Ravinder Abrol, Philippe Youkharibache:
IgStrand: A universal residue numbering scheme for the immunoglobulin-fold (Ig-fold) to study Ig-proteomes and Ig-interactomes. 1012813 - Guillermo Pérez Hernández, Peter W. Hildebrand:
mdciao: Accessible Analysis and Visualization of Molecular Dynamics Simulation Data. 1012837 - Laia Barjuan, Muhua Zheng, M. Ángeles Serrano:
The multiscale self-similarity of the weighted human brain connectome. 1012848 - Cecilia Fruet, Ella Linxia Müller, Claude Loverdo, Anne-Florence Bitbol:
Spatial structure facilitates evolutionary rescue by drug resistance. 1012861 - Travis Carver Tune, Simon Sponberg:
Nanometer scale difference in myofilament lattice structure of muscle alters muscle function in a spatially explicit model. 1012862 - Gabriele Pozzati, Samuel Coulbourn Flores:
Combining flipped-classroom and spaced-repetition learning in a master-level bioinformatics course. 1012863 - Alexander P. Clark, Mukti Chowkwale, Alexander M. Paap, Stephen Dang, Jeffrey J. Saucerman:
Logic-based modeling of biological networks with Netflux. 1012864 - Benjamin M. Brisard, Kylie D. Cashwell, Stephanie M. Stewart, Logan M. Harrison, Aidan C. Charles, Chelsea V. Dennis, Ivie R. Henslee, Ethan L. Carrow, Heather A. Belcher, Debajit Bhowmick, Paul W. Vos, Maciej Majka, Martin Bier, David M. Hart, Cameron A. Schmidt:
Modeling diffusive search by non-adaptive sperm: Empirical and computational insights. 1012865 - Vincent Hickl, Abid Khan, René M. Rossi, Bruno F. B. Silva, Katharina Maniura-Weber:
Segmentation of dense and multi-species bacterial colonies using models trained on synthetic microscopy images. 1012874 - Suzana de Siqueira Santos, Haixuan Yang, Aldo Galeano, Alberto Paccanaro:
Host centric drug repurposing for viral diseases. 1012876 - Shiwei Fu, Wei Vivian Li:
Predicting and comparing transcription start sites in single cell populations. 1012878 - Nava Leibovich, Sidhartha Goyal:
Limitations and optimizations of cellular lineages tracking. 1012880 - Wenwen Min, Donghai Fang, Jinyu Chen, Shihua Zhang:
SpaMask: Dual masking graph autoencoder with contrastive learning for spatial transcriptomics. 1012881 - Sara Javadzadeh, Aaron Adamson, Jonghun Park, Se-Young Jo, Yuan-Chun Ding, Mehrdad Bakhtiari, Vikas Bansal, Susan L. Neuhausen, Vineet Bafna:
Analysis of targeted and whole genome sequencing of PacBio HiFi reads for a comprehensive genotyping of gene-proximal and phenotype-associated Variable Number Tandem Repeats. 1012885 - Lukás Lochman, Ellen Tanaka Kahiya, Bechara Saade, Tomás Smutný, Jurjen Duintjer Tebbens, Petr Pávek, Veronika Bernhauerová:
Quantifying expression and metabolic activity of genes regulated by pregnane X receptor in primary human hepatocyte spheroids. 1012886 - Rime Diany, Laura K. Fitzgibbon-Collins, Sarah A. Gagliano Taliun:
Ten simple rules for getting started with knowledge mobilization. 1012888 - Timur Olzhabaev, Lukas Müller, Daniel Krause, Dominik Schwudke, Andrew Ernest Torda:
Lipidome visualisation, comparison, and analysis in a vector space. 1012892 - Olivier Gimenez, Andy Royle, Marc Kéry, Chloé R. Nater:
Ten quick tips to get you started with Bayesian statistics. 1012898 - Leo A. Featherstone, Danielle J. Ingle, Wytamma Wirth, Sebastián Duchêne:
How does date-rounding affect phylodynamic inference for public health? 1012900 - Daniel J. B. Clarke, John Erol Evangelista, Zhuorui Xie, Giacomo B. Marino, Anna I. Byrd, Mano Ram Maurya, Sumana Srinivasan, Keyang Yu, Varduhi Petrosyan, Matthew E. Roth, Miroslav Milinkov, Charles Hadley King, Jeet Kiran Vora, Jonathon Keeney, Christopher Nemarich, William Khan, Alexander Lachmann, Nasheath Ahmed, Alexandra Agris, Juncheng Pan, Srinivasan Ramachandran, Eoin Fahy, Emmanuel Esquivel, Aleksandar Mihajlovic, Bosko Jevtic, Vuk Milinovic, Sean Kim, Patrick McNeely, Tianyi Wang, Eric Wenger, Miguel A. Brown, Alexander Sickler, Yuankun Zhu, Sherry L. Jenkins, Philip D. Blood, Deanne M. Taylor, Adam C. Resnick, Raja Mazumder, Aleksandar Milosavljevic, Shankar Subramaniam, Avi Ma'ayan:
Playbook workflow builder: Interactive construction of bioinformatics workflows. 1012901 - Khanh N. Dinh, Ignacio Vázquez-García, Andrew Chan, Rhea Malhotra, Adam Weiner, Andrew W. McPherson, Simon Tavaré:
CINner: Modeling and simulation of chromosomal instability in cancer at single-cell resolution. 1012902 - Heejin Choi, Chang Hyeong Lee:
The impact of climate change on ecology of tick associated with tick-borne diseases. 1012903 - Zhiyi Zou, Ying Liu, Yuting Bai, Jiawei Luo, Zhaolei Zhang:
scTrans: Sparse attention powers fast and accurate cell type annotation in single-cell RNA-seq data. 1012904 - Logan Wu, Christopher M. Baker, Nicholas Tierney, Kylie Carville, Jodie McVernon, Nick Golding, James M. McCaw, Freya M. Shearer:
Quantifying the impact of contact tracing interview prioritisation strategies on disease transmission: A modelling study. 1012906 - Ruiqi Lyu, Roni Rosenfeld, Bryan Wilder:
Federated epidemic surveillance. 1012907 - Daniela S. Santurio, Luciana R. C. Barros, Ingmar Glauche, Artur C. Fassoni:
Mathematical modeling unveils the timeline of CAR-T cell therapy and macrophage-mediated cytokine release syndrome. 1012908 - Atsushi Matsuda, Mohammad R. K. Mofrad:
Role of pore dilation in molecular transport through the nuclear pore complex: Insights from polymer scaling theory. 1012909 - Borana Dollomaja, Huifang E. Wang, Maxime Guye, Julia Makhalova, Fabrice Bartolomei, Viktor K. Jirsa:
Virtual epilepsy patient cohort: Generation and evaluation. 1012911 - Eric R. Schultz, Soren Kyhl, Rebecca Willett, Juan J. de Pablo:
Chromatin structures from integrated AI and polymer physics model. 1012912 - James B. Grotberg, Francesco Romanò, John C. Grotberg:
Flow mechanisms of the air-blood barrier. 1012917 - Yi Cheng, Xingyu Wang, Qiang Zhang, Renkai Ge, Mei Zhou, Yue Dai:
Multiple patterns of persistent inward currents with multiple types of repetitive firings in medullary serotonergic neurons of mice: An experimental and modeling study. 1012918 - Ziyan Jin, Xinyi Zhou, Zhaoyuan Fang:
DelaySSA: stochastic simulation of biochemical systems and gene regulatory networks with or without time delays. 1012919 - Matheus Vf Ferraz, W. Camilla S. Adan, Tayná E. Lima, Adriele J. C. Santos, Sérgio O. de Paula, Rafael Dhalia, Gabriel da Luz Wallau, Rebecca C. Wade, Isabelle F. T. Viana, Roberto D. Lins:
Design of nanobody targeting SARS-CoV-2 spike glycoprotein using CDR-grafting assisted by molecular simulation and machine learning. 1012921 - Alyssa N. Sbarra, Emily Haeuser, Samuel Kidane, Andargie Abate, Ayele M. Abebe, Muktar Ahmed, Alemayehu Tsegaye, Erkihun Amsalu, Aleksandr Y. Aravkin, Akeza A. Asgedom, Nebiyou Bayleyegn, Mulat Dagnew, Biniyam Demisse, Werku Etafa, Getahun Fetensa, Teferi Gebru Gebremeskel, Habtamu Geremew, Abraham T. Gizaw, Gamechu A. Hunde, Hadush N. Meles, Sibhat Migbar, Jason Q. Nguyen, Eshetu Nigussie, Rebecca E. Ramshaw, Sam Rolfe, Biniyam Sahiledengle, Noga Shalev, Yonatan Solomon, Latera Tesfaye, Gesila E. Yesera, Mark Jit, Jonathan F. Mosser:
Fitting dynamic measles models to subnational case notification data from Ethiopia: Methodological challenges and key considerations. 1012922 - Jenny Drnevich, Frederick J. Tan, Fabricio Almeida-Silva, Robert Castelo, Aedín C. Culhane, Sean R. Davis, Maria A. Doyle, Ludwig Geistlinger, Andrew R. Ghazi, Susan P. Holmes, Leo Lahti, Alexandru Mahmoud, Kozo Nishida, Marcel Ramos, Kevin C. Rue-Albrecht, David J. H. Shih, Laurent Gatto, Charlotte Soneson:
Learning and teaching biological data science in the Bioconductor community. 1012925 - Sorenza P. Bastiaens, Davide Momi, John D. Griffiths:
A comprehensive investigation of intracortical and corticothalamic models of the alpha rhythm. 1012926 - Hanah Goetz, Rong Zhang, Xiao Wang, Xiao-Jun Tian:
Resource competition-driven bistability and stochastic switching amplify gene expression noise. 1012931 - Toma M. Marinov, Perry T. Wasdin, Gwen Jordaan, Alexis K. Janke, Alexandra A. Abu-Shmais, Ivelin S. Georgiev:
An expandable synthetic library of human paired antibody sequences. 1012932 - Gabriel Matías Lorenz, Nicola Marie Engel, Marco Celotto, Loren Koçillari, Sebastiano Curreli, Tommaso Fellin, Stefano Panzeri:
MINT: A toolbox for the analysis of multivariate neural information coding and transmission. 1012934 - Yufei Wu, Morgan A. Benson, Sean X. Sun:
Fluid and solute transport by cells and a model of systemic circulation. 1012935 - Ana Laura Granados-Tristán, Mauricio Carrillo-Tripp, Carlos Eduardo Hernández-Luna, Aldo Herrera-Rodulfo, Laura Adiene González-Escalante, Ana Leticia Arriaga-Guerrero, Beatriz Silva-Ramírez, Brenda Leticia Escobedo-Guajardo, Roberto Mercado-Hernández, Mario Bermúdez de León, Katia Peñuelas-Urquides:
Mycobacterium susceptibility to ivermectin by inhibition of eccD3, an ESX-3 secretion system component. 1012936 - David N. White, Johannes Burge:
How distinct sources of nuisance variability in natural images and scenes limit human stereopsis. 1012945 - Davide Chicco, Vasco Coelho:
A teaching proposal for a short course on biomedical data science. 1012946 - Troy J. Kieran, Taronna R. Maines, Jessica A. Belser:
Eleven quick tips to unlock the power of in vivo data science. 1012947 - Wenqian Tu, Lihua Zhang:
Integrating multiple spatial transcriptomics data using community-enhanced graph contrastive learning. 1012948 - David J. Pascall, Christopher Jackson, Stephanie Evans, Theodore Gouliouris, Christopher J. R. Illingworth, Stefan G. Piatek, Julie V. Robotham, Oliver Stirrup, Ben Warne, Judith Breuer, Daniela De Angelis:
The NOSTRA model: Coherent estimation of infection sources in the case of possible nosocomial transmission. 1012949 - Christopher J. Whyte, Eli J. Müller, Jaan Aru, Matthew E. Larkum, Yohan John, Brandon R. Munn, James M. Shine:
A burst-dependent thalamocortical substrate for perceptual awareness. 1012951 - Jiaxin Hu, Jesse N. Weber, Lauren E. Fuess, Natalie C. Steinel, Daniel I. Bolnick, Miaoyan Wang:
A spectral framework to map QTLs affecting joint differential networks of gene co-expression. 1012953 - Jay S. Coggan, Polina Shichkova, Henry Markram, Daniel X. Keller:
Seizure and redox rescue in a model of glucose transport deficiency. 1012959 - Emma B. Hodcroft, Martin Wohlfender, Richard A. Neher, Julien Riou, Christian L. Althaus:
Estimating Re and overdispersion in secondary cases from the size of identical sequence clusters of SARS-CoV-2. 1012960 - Yuanxi Li, Bing Zhang, Jinqi Liu, Rubin Wang:
Neural energy coding patterns of dopaminergic neural microcircuit and its impairment in major depressive disorder: A computational study. 1012961 - Alexander M. Morin, Eric Ching-Pan Chu, Paul Pavlidis:
Identifying reproducible transcription regulator coexpression patterns with single cell transcriptomics. 1012962 - Caiyu Zhang, Chenyu Liu, Zhuoru Wang, Di Wang, Wenli Chen, Jian Li, Qianyi Lu, Jiajun Zhou, Yetong Chang, Peng Wang, Yue Gao, Junwei Wang, Hui Zhi, Shangwei Ning:
Comprehensive characterization of respiratory genes based on a computational framework in pan-cancer to develop stratified treatment strategies. 1012963 - Yee Chuen Teoh, Mohammed Sakib Noor, Sina Aghakhani, Jack Girton, Guiping Hu, Ratul Chowdhury:
Viral escape-inspired framework for structure-guided dual bait protein biosensor design. 1012964 - Sander W. Keemink, Mark C. W. van Rossum:
Biases in neural population codes with a few active neurons. 1012969 - Zachary Mobille, Usama Bin Sikandar, Simon Sponberg, Hannah Choi:
Temporal resolution of spike coding in feedforward networks with signal convergence and divergence. 1012971 - Mihriban Seyis, Zahra Razaghi-Moghadam, Zoran Nikoloski:
Flux-sum coupling analysis of metabolic network models. 1012972 - Raphaël Bergoin, Alessandro Torcini, Gustavo Deco, Mathias Quoy, Gorka Zamora-López:
Emergence and maintenance of modularity in neural networks with Hebbian and anti-Hebbian inhibitory STDP. 1012973 - Ihab Hashem, Jian Wang, Jan F. M. Van Impe:
A Discretized Overlap Resolution Algorithm (DORA) for resolving spatial overlaps in individual-based models of microbes. 1012974 - Sarit Felicia Anais Szpiro, Charlie S. Burlingham, Eero P. Simoncelli, Marisa Carrasco:
Perceptual learning improves discrimination but does not reduce distortions in appearance. 1012980 - Alexandre Blanc, François Laurent, Alex Barbier-Chebbah, Hugues Van Assel, Benjamin T. Cocanougher, Benjamin M. W. Jones, Peter Hague, Marta Zlatic, Rayan Chikhi, Christian L. Vestergaard, Tihana Jovanic, Jean-Baptiste Masson, Chloé Barré:
Statistical signature of subtle behavioral changes in large-scale assays. 1012990 - Yoshitaka Kimori:
RMPJ: An ImageJ plugin for morphological information processing in biomedical images. 1012992 - Jin Ke, Hayoung Song, Zihan Bai, Monica D. Rosenberg, Yuan Chang Leong:
Dynamic brain connectivity predicts emotional arousal during naturalistic movie-watching. 1012994 - Ian Roberts, Richard G. Everitt, Jere Koskela, Xavier Didelot:
Bayesian Inference of Pathogen Phylogeography using the Structured Coalescent Model. 1012995 - Wasim Abbas, Sieun Lee, Sangil Kim:
Joint estimation of hand-foot-mouth disease model and prediction in korea using the ensemble kalman filter. 1012996 - Archana Prabahar, Connie S. Chamberlain, Ray Vanderby, William L. Murphy, William Dangelo, Kulkarni Mangesh, Bryan Brown, Barsanjit Mazumder, Stephen Badylak, Peng Jiang:
Transcriptomic landscape around wound bed defines regenerative versus non-regenerative outcomes in mouse digit amputation. 1012997 - Editorial Note: In silico knockout studies of xenophagic capturing of Salmonella. 1012998
- Mona Nourbakhsh, Yuanning Zheng, Humaira Noor, Hongjin Chen, Subhayan Akhuli, Matteo Tiberti, Olivier Gevaert, Elena Papaleo:
Revealing cancer driver genes through integrative transcriptomic and epigenomic analyses with Moonlight. 1012999 - Editorial Note: Mathematical modeling of the molecular switch of TNFR1-mediated signaling pathways applying Petri net formalism and in silico knockout analysis. 1013003
- Wei He, Xu Tian, Xue Li, Peifu Han, Shuang Wang, Lin Liu, Tao Song:
TGF-M: Topology-augmented geometric features enhance molecular property prediction. 1013004 - Laetitia Grabot, Garance Merholz, Jonathan Winawer, David J. Heeger, Laura Dugué:
Traveling waves in the human visual cortex: An MEG-EEG model-based approach. 1013007 - Yannick Jadoul, Taylor A. Hersh, Elias Fernández Domingos, Marco Gamba, Livio Favaro, Andrea Ravignani:
An evolutionary model of rhythmic accelerando in animal vocal signalling. 1013011 - Expression of Concern: HiSV: A control-free method for structural variation detection from Hi-C data. 1013016
- Tim Vriens, Eliana Vassena, Giovanni Pezzulo, Gianluca Baldassarre, Massimo Silvetti:
Meta-Reinforcement Learning reconciles surprise, value, and control in the anterior cingulate cortex. 1013025 - Jacob N. Stapley, Jonathan I. D. Hamley, María-Gloria Basáñez, Martin Walker:
Modelling transmission thresholds and hypoendemic stability for onchocerciasis elimination. 1013026 - Claire Lugrin, Jie Hu, Christian C. Ruff:
A computational account of multiple motives guiding context-dependent prosocial behavior. 1013032 - Wen-Wei Shao, Qi Shao, Hai-Huan Xu, Guan-Ji Qiao, Run-Xuan Wang, Zhi-Yun Ma, Wei-Wei Meng, Zhuo-Bin Yang, Yun-Liang Zang, Xiao-Hong Li:
Repetitive training enhances the pattern recognition capability of cultured neural networks. 1013043 - Romain Brette:
Theory of axo-axonic inhibition. 1013047
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