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May 2026

The interplay of colours, textures, and form in an abstract art piece is an inherently subjective act of interpretation. We decompose the art (above the diagonal) into its underlying shapes using tools from algebraic topology in order to learn what shapes in the image are attracting viewers’ attention and, thus, interpretation. The processed shapes are shown below the diagonal, where colour reflects their `persistence', which is linked to how strongly they stand out. This analysis revealed hidden organizational principles underlying artistic composition - a previously unrecognized “golden rule” of abstract art, linking topological structure to artistic composition and aesthetic perception. Dmitruk et al. 2026

Image Credit: Emil Dmitruk

Education Articles

Ten simple rules for an effective mentor–mentee writing partnership

Kristina Quynn, Megan J. Hemmerlein, Alexandra H. Keene-Snickers, Sarah M. Howard, Mark D. Stenglein, Kathryn Wilsterman, Carol J. Wilusz

Ten simple rules for establishing a drug discovery lab in resource-limited settings

Ryman Shoko, Chipampe Lombe, Tsungai Faith Manyadza, Sithulisiwe Ngwenya, Peter Mubanga Cheuka, Grace Mugumbate

Research Articles

Co-morbid biomarkers for sarcopenic obesity associated with gut microbiota metabolites: From burden to treatment

Juehan Wang, Haijun Li, Weiyi Shi, Xiaoxu Ren, Yingying Liu, Lin Mao, Daming Wang, Tianfang Zhang, Ziwei Zhang, Huiqin Zheng, Xiaofeng Yang, Mingfei Yao, Zuobing Chen

Predicting protein cascade expression from H&E images

Alejandro Leyva, Abdul Rehman Akbar, Muhammad Khalid Khan Niazi

Explainable AI-driven diagnosis model for early glaucoma detection using grey-wolf optimized extreme learning machine approach

Debendra Muduli, Santosh Kumar Sharma, Sujata Dash, Bernardo Lemos, Saurav Mallik

Application of machine learning with MALDI-TOF MS for rapid differentiation between methicillin-susceptible and methicillin-resistant Staphylococcus aureus

Yik-Shun Lin, River Chun-Wai Wong, Jiaxin Yu, Kaichuang Yang, Leo Chun-Hei Wong, Ho-Fung Leung, Ingrid Yu-Ying Cheung, Viola Chi-Ying Chow, Ni Tien, Bang-Jau You, Christopher Koon-Chi Lai, Margaret Ip

Single-cell data integration across weakly linked modalities

Zhipeng Zhou, Yang Zhang, Zhiming Dai

Synthetic data enables human-grade microtubule analysis with foundation models for segmentation

Mario Koddenbrock, Justus Westerhoff, Dominik Fachet, Simone Reber, Felix A. Gers, Erik Rodner

Partial domain adaptation enables cross domain cell type annotation between scRNA-seq and snRNA-seq

Xiran Chen, Quan Zou, Qinyu Cai, Xiaofeng Chen, Weikai Li, Yansu Wang

Exploring epidemic control policies using nonlinear programming and mathematical models

Sandra Montes-Olivas, Adam J. Kucharski, Michael B. Gravenor, Simon D.W. Frost

RNAprecis: Prediction of full-detail RNA conformation from the experimentally best-observed sparse parameters

Henrik Wiechers, Christopher J. Williams, Benjamin Eltzner, Franziska Hoppe, Michael G. Prisant, Vincent B. Chen, Ezra Miller, Kanti V. Mardia, Jane S. Richardson, Stephan F. Huckemann

Distilling noise characteristics and prior expectations in multisensory causal inference

Shuze Liu, Trevor Holland, Wei Ji Ma, Luigi Acerbi

Limited ‘heft’ of weight-based outcomes in predicting influenza A virus disease severity in ferrets

Troy J. Kieran, Taronna R. Maines, Jessica A. Belser

Modeling individual self-protective behavior during epidemics

Geonsik Yu, Michael Garee, Mario Ventresca, Yuehwern Yih

The ecology and evolution of sub-exponential replicators

Bianka Kovács, György Barabás, Géza Meszéna, Eörs Szathmáry, András Szilágyi

A new Fight-or-Flight Pacemaker Mechanism via Ryanodine Receptor abundance and superclustering

Valeria Ventura Subirachs, Syevda Tagirova, Alexander V. Maltsev, Dongmei Yang, Edward G. Lakatta, Michael D. Stern, Victor A. Maltsev

Human mobility and outbreak origins in epidemic spread: Insights from agent-based modeling

Konstantin A. Klochkov, Ivan E. Kozlov, Elena N. Ilina, Alexander I. Manolov

FoMo: A unifying theory of visual foraging

Alasdair D. F. Clarke, Anna E. Hughes

The differentiation of myeloid progenitors is effected by cascading waves of coordinated gene expression that remodel cellular physiology in a characteristic sequence

Andrea Repele, Joanna Handzlik, Nimasha Samarawickrama, Trevor Long, Sunil Nooti, Veena Potluri, Yen Lee Loh, Manu

Network structure induced bias in estimates of intrinsic generation times

Pratyush K. Kollepara, Chiara Poletto, Joel C. Miller

Extremal events dictate population growth rate inference

Trevor GrandPre, Ethan Levien, Ariel Amir

Biomedical open source software: Crucial packages and hidden heroes

Eva Maxfield Brown, Stephan Druskat, Laurent Hébert-Dufresne, James Howison, Daniel Mietchen, Andrew Nesbitt, João Felipe Pimentel, Boris Veytsman

A multi-frequency whole-brain neural mass model with homeostatic feedback inhibition

Carlos Coronel-Oliveros, Fernando Lehue, Rubén Herzog, Iván Mindlin, Marilyn Gatica, Natalia Kowalczyk-Grębska, Vicente Medel, Josephine Cruzat, Raul Gonzalez-Gomez, Hernán Hernandez, Enzo Tagliazucchi, Pavel Prado, Patricio Orio, Agustín Ibáñez

Art’s hidden topology: A window into human perception

Emil Dmitruk, Beata Bajno, Lidia Kot, Joanna Dreszer, Bibianna Bałaj, Ewa Ratajczak, Marcin Hajnowski, Romuald A. Janik, Marek Kuś, Shabnam N. Kadir, Jacek Rogala

Decoupling between activation time and steady-state level in input-output responses

Giorgio Ravanelli, Kee-Myoung Nam, Jeremy Gunawardena, Rosa Martinez-Corral

Exploring the relationship between vascular remodelling and tumour growth using agent-based modelling

Nicholas Fan, Joshua A. Bull, Helen M. Byrne

The speed limit of visual perception: Bidirectional influence of image memorability and processing speed on perceived duration and recognition

Martin Wiener, Chloe Mondok, Alex Ma, Chetan Desai, April Joyner, Giuliana Macedo

Dynamic metabolic modeling uncovers systems-level strategies to simultaneously maximize levan yield and substrate efficiency in Bacillus subtilis LY7.16

Muhammad Naufal Hakim, Porntip Chiewchankaset, Saowalak Kalapanulak, Rattiya Waeonukul, Suratsawadee Tiangpook, Treenut Saithong

Energy transfer leaves fingerprints in cyanine photoswitching behavior

Vincent Ebert, Markus Sauer, Sören Doose

A three-dimensional shear dependent continuum model of platelet aggregation under flow

David Montgomery, Eric S. Barrientos, Jake M. Grdadolnik, Kelli Hendrickson, Aaron L. Fogelson, Keith B. Neeves, Karin Leiderman

BudFinder: A Masked Auto-Encoder vision transformer framework for yeast budding detection and lifespan quantification

Phuc Nguyen, Zahra Mousavi Karimi, Adrian Layer, Markus B. Wan, Hetian Su, Jeff Hasty, Nan Hao

Multimodal data integration to determine viral and innate immune kinetics in human airway epithelium

Pascal Lukas, Aurélien Gibeaud, Clarisse Schumer, Jonas Arruda, Jeremie Guedj, Olivier Terrier, Frederik Graw

Coevolutionary dynamics of viruses and their defective interfering particles

Shiv Muthupandiyan, John Yin

PowerNovo2: A generative flow-based approach to non-autoregressive de novo peptide sequencing

Denis V. Petrovskiy, Kirill S. Nikolsky, Vladimir R. Rudnev, Liudmila I. Kulikova, Tatiana V. Butkova, Kristina A. Malsagova, Arthur T. Kopylov, Anna L. Kaysheva

Dynamics of trachoma infection in West Africa revealed by a hidden state model

Jake Carson, Thomas Crellen, Anna Borlase, Joaquin M. Prada, Robin Bailey, T. Déirdre Hollingsworth, Simon E. F. Spencer

Dual-channel graph learning reveals similarity and complementarity in protein-protein interaction networks

Tao Tang, Taiguang Shen, Weizhuo Li, Yangyang Chen, Sisi Yuan, Yuansheng Liu, Xinyu Yang, Xiao Luo

DENcode: A model for haplotype-informed transmission probability of dengue virus

Sachith Maduranga, Braulio Mark Valencia, Chathurani Sigera, Praveen Weeratunga, Deepika Fernando, Senaka Rajapakse, Andrew R. Lloyd, Rowena A. Bull, Haley Stone, Chaturaka Rodrigo

Trial-level sequence modeling reveals hidden dynamics of dual-task interference

Rick den Otter, Anna Dame, Sjoerd Stuit, Leendert van Maanen

Energetic constraints shape the diversity of feasible ecological networks

Chengyi Long, Marco Tulio Angulo, C. Brandon Ogbunugafor, Ricard Solé, Serguei Saavedra

Fast reconstruction of degenerate populations of conductance-based neuron models from spike times

Julien Brandoit, Damien Ernst, Guillaume Drion, Arthur Fyon

Scaffold-Lab: Critical evaluation and ranking of protein backbone generation methods in a unified framework

Zhuoqi Zheng, Bo Zhang, Bozitao Zhong, Jinyu Yu, Kexin Liu, Zhengxin Li, Junjie Zhu, Ting Wei, Hai-Feng Chen

Spatial richness of neural magnetic fields

Ziad Ali, Ada S. Y. Poon

Multilabel prediction of virus target proteins via multimodal graph representation learning

Kuang Ma, Kaiyu Liu, Yuhui Xin, Rong Liu

Evaluating place cell detection methods in Rats and Humans: Implications for cross-species spatial coding

Weijia Zhang, Thomas Donoghue, Salman E. Qasim, Joshua Jacobs

Utilizing virus genomic surveillance to predict vaccine effectiveness

Jiye Kwon, Ke Li, Joshua L. Warren, Sameer Pandya, Anne M. Hahn, Yale SARS-CoV-2 Genomic Surveillance Initiative, Virginia E. Pitzer, Daniel M. Weinberger, Nathan D. Grubaugh

The role of pragmatic mechanisms in referential communication and categorization: An emergent communication model

Kristina Kobrock, Xenia Ohmer, Elia Bruni, Nicole Gotzner

When one race is not enough: A relay model explains multisensory response times

Kalvin Roberts, Thomas U. Otto

The interplay between ecological networks drives host-plasmid community dynamics

Ying-Jie Wang, Kaitlin A. Schaal, Johannes Nauta, Armun Liaghat, Manlio De Domenico, James P. J. Hall, Shai Pilosof

Cooperative molecular interaction networks govern PARP1 inhibitor selectivity and binding affinity

Alejandro Feito, Natàlia DeMoya-Valenzuela, Cristian Privat, Andrés R. Tejedor, Lucía Paniagua-Herranz, Adiran Garaizar, Alberto Ocana, Jorge R. Espinosa

Hierarchical recurrent temporal prediction as a model of the mammalian dorsal visual pathway

Sebastian Klavinskis-Whiting, Andrew J. King, Nicol S. Harper

TIPP-SD: A new method for species detection in microbiomes

Chengze Shen, Eleanor Wedell, Mihai Pop, Tandy Warnow

Fully synthetic replication of complex real biological cell clusters using a novel cluster-based ‘Rosetta-Routine’ computational modelling process

Bradley Mason, Laura Justham, Liam Whitby, Alison Whitby, Stuart Scott, Samuel Nti, Jon Petzing

Structural and dynamic basis of NOD2 tandem CARD association and NOD1/2–RIP2 signaling complexes

Jitendra Maharana, Aritra Bej, Debasish Biswal, Debashis Panda, Arjun Sharma

Methods

Fast and interpretable quantification of biological shape heterogeneity via stratified Wasserstein kernel

Wenjun Zhao, Danica J. Sutherland, Khanh Dao Duc

scHilda: Hierarchical Integration of LLM with KG database for single cell type annotation

Yilang Li, Yidi Sun, Aoyun Geng, Junlin Xu, Yajie Meng, Feifei Cui, Leyi Wei, Quan Zou, Xiulai Li, Zilong Zhang

Functional group classification using consensus clustering

Pablo Ubilla Pavez, Andrea Paz, Daniel S. Maynard

CASPULE: A computational tool to study sticker spacer polymer condensates

Aniruddha Chattaraj, David S. Kanovich, Srivastav Ranganathan, Eugene I. Shakhnovich

MIRAGE: Robust multi-modal architectures translate fMRI-to-image models from vision to mental imagery

Reese Kneeland, Cesar Kadir Torrico Villanueva, Tong Chen, Jordyn Ojeda, Shubh Khanna, Jonathan Xu, Paul S. Scotti, Thomas Naselaris

DREAMER-S: Deep leaRning-Enabled Attention-based Multiple-instance approaches with Explainable Representations for Spatial biology

M. Rifqi Rafsanjani, Alison Dooney, Rahul Suresh, Alice C. O’Farrell, Monika A. Jarzabek, Liam Shiels, Annette T. Byrne, Jochen H. M. Prehn, Aidan D. Meade

MIAAIM: Multi-omics image integration with dimensional reduction for tissue state mapping

Joshua M. Hess, Richard K. Dzeng, Iulian Ilieş, Denis Schapiro, John J. Iskra, Divya Mirgh, John Nam, Erin H. Seeley, David E. Verrill, Walid M. Abdelmoula, Michael S. Regan, Georgios Theocharidis, Chin Lee Wu, Aristidis Veves, Nathalie Y. R. Agar, Ann E. Sluder, Mark C. Poznansky, Ruxandra F. Sîrbulescu, Patrick M. Reeves

BINSEQ: A family of high-performance binary formats for nucleotide sequences

Noam Teyssier, Alexander Dobin

Software

VUStruct: A compute pipeline for high throughput and personalized structural biology

Christopher W. Moth, Jonathan H. Sheehan, Abdullah Al Mamun, R. Michael Sivley, Alican Gulsevin, David C. Rinker, Zenab F. Mchaourab, Undiagnosed Diseases Network, John A. Capra, Jens Meiler

AIEdit: Alignment-free genome assembly polisher trained on spaced seed match patterns

Parham Kazemi, Ivana Sánchez Olivares, René L. Warren, Lauren Coombe, Inanc Birol

VesiclePy: A machine learning vesicle analysis toolbox for volume electron microscopy

Jason Ken Adhinarta, Yutian Fan, Adam Gohain, Michael Lin, Paige Nurkin, Richard Ren, Micaela Roth, Shulin Zhang, Ayal Yakobe, Rafael Yuste, Donglai Wei