DepoScope: Accurate phage depolymerase annotation and domain delineation using large language models
by Robby Concha-Eloko, Michiel Stock, Bernard De Baets, Yves Briers, Rafael Sanjuan, Pilar Domingo-Calap, Dimitri Boeckaerts
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by Robby Concha-Eloko, Michiel Stock, Bernard De Baets, Yves Briers, Rafael Sanjuan, Pilar Domingo-Calap, Dimitri Boeckaerts
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by Alex T. Keeley, Jeffrey M. Lotthammer, Jacqueline F. Pelham
Circadian rhythms are ubiquitous across the kingdoms of life and serve important roles in regulating physiology and behavior at many levels. These rhythms occur in ~24-hour cycles and are driven by a core molecular oscillator. Circadian timekeeping enables organisms to anticipate daily changes by timing their growth and internal processes. Neurospora crassa is a model organism with a long history in circadian biology, having conserved... Читать дальше...
by Chadi M. Saad-Roy, Sinead E. Morris, Mike Boots, Rachel E. Baker, Bryan L. Lewis, Jeremy Farrar, Madhav V. Marathe, Andrea L. Graham, Simon A. Levin, Caroline E. Wagner, C. Jessica E. Metcalf, Bryan T. Grenfell
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by The CRyPTIC consortium
There remains a clinical need for better approaches to rapid drug susceptibility testing in view of the increasing burden of multidrug resistant tuberculosis. Binary susceptibility phenotypes only capture changes in minimum inhibitory concentration when these cross the critical concentration, even though other changes may be clinically relevant. We developed a machine learning system to predict minimum inhibitory concentration from unassembled whole-genome sequencing data for 13 anti-tuberculosis drugs. Читать дальше...
by Teemu J. Rintala, Vittorio Fortino
Recent research on multi-view clustering algorithms for complex disease subtyping often overlooks aspects like clustering stability and critical assessment of prognostic relevance. Furthermore, current frameworks do not allow for a comparison between data-driven and pathway-driven clustering, highlighting a significant gap in the methodology. We present the COPS R-package, tailored for robust evaluation of single and multi-omics clustering results. COPS features advanced methods... Читать дальше...
by Rune Höper, Daria Komkova, Tomáš Zavřel, Ralf Steuer
The metabolism of phototrophic cyanobacteria is an integral part of global biogeochemical cycles, and the capability of cyanobacteria to assimilate atmospheric CO2 into organic carbon has manifold potential applications for a sustainable biotechnology. To elucidate the properties of cyanobacterial metabolism and growth, computational reconstructions of genome-scale metabolic networks play an increasingly important role. Here, we present... Читать дальше...
by Honghan Li, Shiyou Liu, Shinji Deguchi, Daiki Matsunaga
Cells exhibit various morphological characteristics due to their physiological activities, and changes in cell morphology are inherently accompanied by the assembly and disassembly of the actin cytoskeleton. Stress fibers are a prominent component of the actin-based intracellular structure and are highly involved in numerous physiological processes, e.g., mechanotransduction and maintenance of cell morphology. Although it is widely... Читать дальше...
by Andrew A. Schmidt, Alexander Y. Grosberg, Anna Grosberg
Understanding muscle contraction mechanisms is a standing challenge, and one of the approaches has been to create models of the sarcomere–the basic contractile unit of striated muscle. While these models have been successful in elucidating many aspects of muscle contraction, they fall short in explaining the energetics of functional phenomena, such as rigor, and in particular, their dependence on the concentrations of the biomolecules involved in the cross-bridge cycle. Читать дальше...
by Alireza Zaeemzadeh, Giulio Tononi
Originally developed as a theory of consciousness, integrated information theory provides a mathematical framework to quantify the causal irreducibility of systems and subsets of units in the system. Specifically, mechanism integrated information quantifies how much of the causal powers of a subset of units in a state, also referred to as a mechanism, cannot be accounted for by its parts. If the causal powers of the mechanism can be fully explained by its parts... Читать дальше...
by Jonathan da Silva Ramos, Ivo Henrique Provensi Vieira, Wan Song Rocha, Rosimar Pires Esquerdo, Carolina Yukari Veludo Watanabe, Fernando Berton Zanchi
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by Anton Suvorov, Daniel R. Schrider
A phylogenetic tree represents hypothesized evolutionary history for a set of taxa. Besides the branching patterns (i.e., tree topology), phylogenies contain information about the evolutionary distances (i.e. branch lengths) between all taxa in the tree, which include extant taxa (external nodes) and their last common ancestors (internal nodes). During phylogenetic tree inference, the branch lengths are typically co-estimated along with other phylogenetic... Читать дальше...
by Michael B. Sohn, Cynthia Monaco, Steven R. Gill
In many omics data, including microbiome sequencing data, we are only able to measure relative information. Various computational or statistical methods have been proposed to extract absolute (or biologically relevant) information from this relative information; however, these methods are under rather strong assumptions that may not be suitable for multigroup (more than two groups) and/or longitudinal outcome data. In this article, we first... Читать дальше...
by Seth Commichaux, Tu Luan, Harihara Subrahmaniam Muralidharan, Mihai Pop
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by Tsuyoshi Miki, Takeshi Uemura, Miki Kinoshita, Yuta Ami, Masahiro Ito, Nobuhiko Okada, Takemitsu Furuchi, Shin Kurihara, Takeshi Haneda, Tohru Minamino, Yun-Gi Kim
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This radical project is designed to protect Earth’s species in space-based vaults. Will it work?
By Keegan Kelly Published: August 05th, 2024
Brad Penner-USA TODAY Sports
MLB news roundup
Happy Monday, Athletics Nation!
The A’s lost their first series since July 11 yesterday as the Dodgers prevailed in a hard-fought third and decisive game. Their homestand continues today against a historically bad Chicago White Sox team that has lost 20 straight, thus providing Oakland a golden opportunity to right the ship and continue the winning ways they’ve exhibited since right before the All-Star Break.
Yesterday’s... Читать дальше...
Cleveland Guardians minor league recap for Monday, Aug. 5, 2024
Columbus Clippers 4, Syracuse Mets 1
Box Score · Clippers improve to 54-52
Will Dion entered the 2024 season as one of the next men up with a potential to help Cleveland’s rotation at MLB. He has struggled mightily this season at Triple-A, but that wasn’t the case Sunday when he had by far his best start of the season.
Dion tossed six shutout frames on four hits with four strikeouts and just one walk allowed... Читать дальше...
Have you ever had a terrible roommate? You know the kind we’re talking about. They’re the ones who don’t know how …
Читать дальше...Daniels' pulpy Southern Gothic was raked over by critics at the 2012 Cannes Film Festival, where it became known as the film where "Nicole Kidman pisses on Zac Efron."
Many influencers focus on followers, likes and comments in hopes of monetization; however, those aren't the most important numbers coinciding with profitability.
The quest for growth and knowledge is unending. As a leader, I've found invaluable insights and inspiration not in the boardroom, but on the quiet shelves of my bookcase.
JJ Watt, the former Houston Texan and Arizona Cardinal, is the latest of many celebrities and athletes with products in their names at famous franchises.
Filed under: Green,Toyota,Deep Dive,Hybrid,Sedan,Driveway Tests
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