Modelling cell shape in 3D structured environments: A quantitative comparison with experiments. by Rabea Link, Mona Jaggy, Martin Bastmeyer, Ulrich S Schwarz

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Thermodynamic modeling of genome-wide nucleosome depleted regions in yeast. by Hungyo Kharerin, Lu Bai

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The structural basis of ATP as an allosteric modulator. by Shaoyong Lu, Wenkang Huang, Qi Wang, Qiancheng Shen, Shuai Li, Ruth Nussinov, Jian Zhang

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Integrating Equation Coding with Residual Networks for Efficient ODE Approximation in Biological Research by Ziyue Yi

“…Biological research traditionally relies on experimental methods, which can be inefficient and hinder knowledge transfer due to redundant trial-and-error processes and difficulties in standardizing results. …”
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Forward and backward inference in spatial cognition. by Will D Penny, Peter Zeidman, Neil Burgess

“…We also propose a mapping of the above computational processes onto lateral and medial entorhinal cortex and hippocampus.…”
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A theoretical justification for single molecule peptide sequencing. by Jagannath Swaminathan, Alexander A Boulgakov, Edward M Marcotte

“…The proteomes of cells, tissues, and organisms reflect active cellular processes and change continuously in response to intracellular and extracellular cues. …”
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scSDNE: A semi-supervised method for inferring cell-cell interactions based on graph embedding. by Chenchen Jia, Haiyun Wang, Jianping Zhao, Junfeng Xia, Chunhou Zheng

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Kernel machine tests of association using extrinsic and intrinsic cluster evaluation metrics. by Alexandria M Jensen, Peter DeWitt, Brianne M Bettcher, Julia Wrobel, Katerina Kechris, Debashis Ghosh

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Predicting the diversity of photosynthetic light-harvesting using thermodynamics and machine learning. by Callum Gray, Samir Chitnavis, Tamara Buja, Christopher D P Duffy

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Localizing genes to cerebellar layers by classifying ISH images. by Lior Kirsch, Noa Liscovitch, Gal Chechik

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Structure-Based Alignment and Consensus Secondary Structures for Three HIV-Related RNA Genomes. by Christopher A Lavender, Robert J Gorelick, Kevin M Weeks

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A systematic framework for molecular dynamics simulations of protein post-translational modifications. by Drazen Petrov, Christian Margreitter, Melanie Grandits, Chris Oostenbrink, Bojan Zagrovic

“…By directly affecting structure, dynamics and interaction networks of their targets, post-translational modifications (PTMs) of proteins play a key role in different cellular processes ranging from enzymatic activation to regulation of signal transduction to cell-cycle control. …”
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Amino acid sequence assignment from single molecule peptide sequencing data using a two-stage classifier. by Matthew Beauregard Smith, Zack Booth Simpson, Edward M Marcotte

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Understanding molecular mechanisms and predicting phenotypic effects of pathogenic tubulin mutations. by Thomas J Attard, Julie P I Welburn, Joseph A Marsh

“…Cells rely heavily on microtubules for several processes, including cell division and molecular trafficking. …”
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Modeling systems-level regulation of host immune responses. by Juilee Thakar, Mylisa Pilione, Girish Kirimanjeswara, Eric T Harvill, Réka Albert

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Protein family expansions and biological complexity. by Christine Vogel, Cyrus Chothia

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Identifying reproducible transcription regulator coexpression patterns with single cell transcriptomics. by Alexander Morin, Ching Pan Chu, Paul Pavlidis

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Multifunctional RNA-binding proteins influence mRNA abundance and translational efficiency of distinct sets of target genes. by Valentin Schneider-Lunitz, Jorge Ruiz-Orera, Norbert Hubner, Sebastiaan van Heesch

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A Bayesian hierarchical model of trial-to-trial fluctuations in decision criterion. by Robin Vloeberghs, Anne E Urai, Kobe Desender, Scott W Linderman

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Integration of the transcriptome and glycome for identification of glycan cell signatures. by Sandra V Bennun, Kevin J Yarema, Michael J Betenbaugh, Frederick J Krambeck

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