Skip to main content
Advertisement
Table of Contents

March 2025

Phase estimation is a critical tool for analyzing oscillatory signals. However, for oscillatory signals in the brain, invasive measurement techniques have the potential to alter oscillatory dynamics. Here we show the results of a new phase estimation technique that can be applied to data from intact neural tissue. Yao et al 2025

Image Credit: Yao et al.

Education

Eleven quick tips for writing a Bioconductor package

Charlotte Soneson, Lori Shepherd, Marcel Ramos, Kevin Rue-Albrecht, Johannes Rainer, Hervé Pagès, Vincent J. Carey

Research Articles

Modeling decision-making under uncertainty with qualitative outcomes

Nachshon Korem, Or Duek, Ruonan Jia, Emily Wertheimer, Sierra Metviner, Michael Grubb, Ifat Levy

Post-processing and weighted combination of infectious disease nowcasts

André Victor Ribeiro Amaral, Daniel Wolffram, Paula Moraga, Johannes Bracher

Suprachiasmatic nucleus-wide estimation of oscillatory temporal dynamics

Yifan Yao, Scott Pauls, Duncan Foley, Tomoko Yoshikawa, Sato Honma, Ken-Ichi Honma, Ellie McVeigh, Nicolas C. Foley, Rae Silver

Penalised regression improves imputation of cell-type specific expression using RNA-seq data from mixed cell populations compared to domain-specific methods

Wei-Yu Lin, Melissa Kartawinata, Bethany R. Jebson, Restuadi Restuadi, Hannah Peckham, Anna Radziszewska, Claire T. Deakin, Coziana Ciurtin, CLUSTER Consortium, Lucy R. Wedderburn, Chris Wallace

Efficient numerosity estimation under limited time

Joseph A Heng, Michael Woodford, Rafael Polania

DySCo: A general framework for dynamic functional connectivity

Giuseppe de Alteriis, Oliver Sherwood, Alessandro Ciaramella, Robert Leech, Joana Cabral, Federico E Turkheimer, Paul Expert

iSoMAs: Finding isoform expression and somatic mutation associations in human cancers

Hua Tan, Valer Gotea, Sushil K. Jaiswal, Nancy E. Seidel, David O. Holland, Kevin Fedkenheuer, Abdel G. Elkahloun, Sara R. Bang-Christensen, Laura Elnitski

Exploring the transmission of cognitive task information through optimal brain pathways

Zhengdong Wang, Yifeixue Yang, Ziyi Huang, Wanyun Zhao, Kaiqiang Su, Hengcheng Zhu, Dazhi Yin

Computational modelling identifies primary mediators of crosstalk between DNA damage and oxidative stress responses

Elsje J. Burgers, Raju P. Sharma, Carl Joshua S. Eugenio, Muriel M. Heldring, Lukas S. Wijaya, Bob van de Water, Joost B. Beltman

Internal cohesion gradient as a novel mechanism of collective cell migration

Larissa M. Oprysk, Maribel Vazquez, Troy Shinbrot

Predicting the diversity of photosynthetic light-harvesting using thermodynamics and machine learning

Callum Gray, Samir Chitnavis, Tamara Buja, Christopher D P Duffy

Metabolic network reconstruction as a resource for analyzing Salmonella Typhimurium SL1344 growth in the mouse intestine

Evangelia Vayena, Lea Fuchs, Homa Mohammadi Peyhani, Konrad Lagoda, Bidong Nguyen, Wolf-Dietrich Hardt, Vassily Hatzimanikatis

Mixed recurrent connectivity in primate prefrontal cortex

Evangelos Sigalas, Camilo Libedinsky

RBC-GEM: A genome-scale metabolic model for systems biology of the human red blood cell

Zachary B. Haiman, Alicia Key, Angelo D’Alessandro, Bernhard O. Palsson

Synthetic population generation with public health characteristics for spatial agent-based models

Emma Von Hoene, Amira Roess, Hamdi Kavak, Taylor Anderson

Machine learning-based prediction reveals kinase MAP4K4 regulates neutrophil differentiation through phosphorylating apoptosis-related proteins

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

Predictive reward-prediction errors of climbing fiber inputs integrate modular reinforcement learning with supervised learning

Huu Hoang, Shinichiro Tsutsumi, Masanori Matsuzaki, Masanobu Kano, Keisuke Toyama, Kazuo Kitamura, Mitsuo Kawato

lncreased risk of slippage upon disengagement of the mitotic checkpoint

Alma Beatrix Stier, Paolo Bonaiuti, János Juhász, Fridolin Gross, Andrea Ciliberto

How immunity shapes the long-term dynamics of influenza H3N2

Oliver Eales, Freya M. Shearer, James M. McCaw

Unknotting RNA: A method to resolve computational artifacts

Simón Poblete, Mikolaj Mlynarczyk, Marta Szachniuk

Gauge fixing for sequence-function relationships

Anna Posfai, Juannan Zhou, David M. McCandlish, Justin B. Kinney

Investigation of hemodynamic bulk flow patterns caused by aortic stenosis using a combined 4D Flow MRI-CFD framework

Tianai Wang, Christine Quast, Florian Bönner, Malte Kelm, Tobias Zeus, Teresa Lemainque, Ulrich Steinseifer, Michael Neidlin

Analysis of systemic effects of dioxin on human health through template-and-anchor modeling

Carla M. Kumbale, Qiang Zhang, Eberhard O. Voit

Computational studies reveal structural characterization and novel families of Puccinia striiformis f. sp. tritici effectors

Raheel Asghar, Nan Wu, Noman Ali, Yulei Wang, Mahinur Akkaya

An integrative network approach for longitudinal stratification in Parkinson’s disease

Barry Ryan, Riccardo Marioni, T. Ian Simpson