All Stories

  1. Higher-order interactions in auxotroph communities enhance their resilience to resource fluctuations
  2. Intrinsic OASL expression governs heterogeneity in interferon induction during influenza A virus infection
  3. Resource ratio fluctuations drive the evolution of microbial metabolic strategies
  4. ML-Guided GWAS Reveals Genetic Architectures for MASLD for Overweight and Lean Individuals in the All of Us Cohort
  5. Single-cell heterogeneity in interferon induction potential is heritable and governed by variation in cell state
  6. Protein Language Models Capture Structural and Functional Epistasis in a Zero-Shot Setting
  7. Coarse-grained model of serial dilution dynamics in synthetic human gut microbiome
  8. Evolutionary chemical learning in dimerization networks
  9. Intrinsic OASL expression licenses interferon induction during influenza A virus infection
  10. Predicting metabolite response to dietary intervention using deep learning
  11. SPLICER: a highly efficient base editing toolbox that enables in vivo therapeutic exon skipping
  12. noSpliceVelo infers gene expression dynamics without separating unspliced and spliced transcripts
  13. noSpliceVelo infers gene expression dynamics without separating unspliced and spliced transcripts
  14. DR-BERT: A protein language model to annotate disordered regions
  15. Fitness advantage of sequential metabolic strategies emerges from community interactions in strongly fluctuating environments
  16. Higher-Order Interactions in Auxotroph Communities Enhance Their Resilience to Resource Fluctuations
  17. Semi-quantitative group testing for efficient and accurate qPCR screening of pathogens with a wide range of loads
  18. SPLICER: A Highly Efficient Base Editing Toolbox That Enables In Vivo Therapeutic Exon Skipping
  19. Emergence of catalytic function in prebiotic information-coding polymers
  20. Emergence of catalytic function in prebiotic information-coding polymers
  21. Coarse-Grained Model of Serial Dilution Dynamics in Synthetic Human Gut Microbiome
  22. A transcriptomic atlas of acute stress response to low pH in multiple Issatchenkia orientalis strains
  23. Emergence of catalytic function in prebiotic information-coding polymers
  24. FUN-PROSE: A deep learning approach to predict condition-specific gene expression in fungi
  25. Semi-Quantitative Group Testing for Efficient and Accurate qPCR Screening of Pathogens with a Wide Range of Loads
  26. The ecological consequences of microbial metabolic strategies in fluctuating environments
  27. Functional convergence in slow-growing microbial communities arises from thermodynamic constraints
  28. Emergence of catalytic function in prebiotic information-coding polymers
  29. Gut Microbiome-Host Metabolome Homeostasis upon Exposure to PFOS and GenX in Male Mice
  30. Predicting metabolite response to dietary intervention using deep learning
  31. Predicting metabolomic profiles from microbial composition through neural ordinary differential equations
  32. DR-BERT: A Protein Language Model to Annotate Disordered Regions
  33. Transformer Neural Networks for Protein Family and Interaction Prediction Tasks
  34. Fine-scale diversity of microbial communities due to satellite niches in boom and bust environments
  35. Predicting metabolomic profiles from microbial composition through neural ordinary differential equations
  36. FUN-PROSE: A Deep Learning Approach to Predict Condition-Specific Gene Expression in Fungi
  37. Mitigation of SARS-CoV-2 transmission at a large public university
  38. Fine-scale diversity of microbial communities due to satellite niches in boom-and-bust environments
  39. Functional convergence in slow-growing microbial communities arises from thermodynamic constraints
  40. Complementary resource preferences spontaneously emerge in diauxic microbial communities
  41. Stochastic social behavior coupled to COVID-19 dynamics leads to waves, plateaus, and an endemic state
  42. A cross-study analysis of drug response prediction in cancer cell lines
  43. Author response: Stochastic social behavior coupled to COVID-19 dynamics leads to waves, plateaus, and an endemic state
  44. Mitigation of SARS-CoV-2 Transmission at a Large Public University
  45. Time-dependent heterogeneity leads to transient suppression of the COVID-19 epidemic, not herd immunity
  46. Complementary resource preferences spontaneously emerge in diauxic microbial communities
  47. Ecology-guided prediction of cross-feeding interactions in the human gut microbiome
  48. Reduction of chaos in molecular sequences at the Origin of Life
  49. Stochastic social behavior coupled to COVID-19 dynamics leads to waves, plateaus and an endemic state
  50. Emergency ventilator for COVID-19
  51. Modeling COVID-19 Dynamics in Illinois under Nonpharmaceutical Interventions
  52. The network structure and eco-evolutionary dynamics of CRISPR-induced immune diversification
  53. Transforming the Language of Life
  54. Entry screening and multi-layer mitigation of COVID-19 cases for a safe university reopening
  55. Ligation of random oligomers leads to emergence of autocatalytic sequence network
  56. Modeling microbial cross-feeding at intermediate scale portrays community dynamics and species coexistence
  57. Persistent heterogeneity not short-term overdispersion determines herd immunity to COVID-19
  58. Projections and early-warning signals of a second wave of the COVID-19 epidemic in Illinois
  59. Ecology-guided prediction of cross-feeding interactions in the human gut microbiome
  60. Transforming the Language of Life: Transformer Neural Networks for Protein Prediction Tasks
  61. Ecology-guided prediction of cross-feeding interactions in the human gut microbiome
  62. Modeling COVID-19 dynamics in Illinois under non-pharmaceutical interventions
  63. Hitchhiking, collapse, and contingency in phage infections of migrating bacterial populations
  64. Window of Opportunity for Mitigation to Prevent Overflow of ICU capacity in Chicago by COVID-19
  65. Modeling microbial cross-feeding at intermediate scale portrays community dynamics and species coexistence
  66. Evidence for a multi-level trophic organization of the human gut microbiome
  67. Multistability and regime shifts in microbial communities explained by competition for essential nutrients
  68. The network structure and eco-evolutionary dynamics of CRISPR-induced immune diversification
  69. Regime Shifts in a Phage-Bacterium Ecosystem and Strategies for Its Control
  70. Evidence for a multi-level trophic organization of the human gut microbiome
  71. Phages associated with horses provide new insights into the dominance of lateral gene transfer in virulent bacteriophages evolution in natural systems
  72. Predicting tumor cell line response to drug pairs with deep learning
  73. Alternative stable states in a model of microbial community limited by multiple essential nutrients
  74. Onset of natural selection in populations of autocatalytic heteropolymers
  75. Phase transitions in social networks inspired by the Schelling model
  76. Hitchhiking, collapse and contingency in phage infections of migrating bacterial populations
  77. Multiple stable states in microbial communities explained by the stable marriage problem
  78. KBase: The United States Department of Energy Systems Biology Knowledgebase
  79. Diversity, Stability, and Reproducibility in Stochastically Assembled Microbial Ecosystems
  80. Multiple stable states in microbial communities explained by the stable marriage problem
  81. Diversity, stability, and reproducibility in stochastically assembled microbial ecosystems
  82. Onset of natural selection in auto-catalytic heteropolymers
  83. Severe population collapses and species extinctions in multihost epidemic dynamics
  84. Recombination-Driven Genome Evolution and Stability of Bacterial Species
  85. Family-specific scaling laws in bacterial genomes
  86. Severe population collapses and species extinctions in multi-host epidemic dynamics
  87. Population cycles and species diversity in dynamic Kill-the-Winner model of microbial ecosystems
  88. Pan- and core- network analysis of co-expression genes in a model plant
  89. DREISS: Using State-Space Models to Infer the Dynamics of Gene Expression Driven by External and Internal Regulatory Networks
  90. Large-Scale Public Transcriptomic Data Mining Reveals a Tight Connection between the Transport of Nitrogen and Other Transport Processes in Arabidopsis
  91. Large-scale atlas of microarray data reveals the distinct expression landscape of different tissues in Arabidopsis
  92. Pan- and core- network analysis of co-expression genes in a model plant
  93. Diversity Waves in Collapse-Driven Population Dynamics
  94. Spontaneous emergence of autocatalytic information-coding polymers
  95. Diversity waves in collapse-driven population dynamics
  96. Recombinant transfer in the basic genome of Escherichia coli
  97. Well-temperate phage: optimal bet-hedging against local environmental collapses
  98. Transcriptional Responses to Sucrose Mimic the Plant-Associated Life Style of the Plant Growth Promoting Endophyte Enterobacter sp. 638
  99. Comparative network analysis of gene co-expression networks reveals the conserved and species-specific functions of cell-wall related genes between Arabidopsis and Poplar
  100. Evolutionary Capacitance and Control of Protein Stability in Protein-Protein Interaction Networks
  101. Universal distribution of component frequencies in biological and technological systems
  102. Joint scaling laws in functional and evolutionary categories in prokaryotic genomes
  103. A Toolbox Model of Evolution of Metabolic Pathways on Networks of Arbitrary Topology
  104. Topology of protein interaction network shapes protein abundances and strengths of their functional and nonspecific interactions
  105. Understanding the Differences between Genome Sequences of Escherichia coli B Strains REL606 and BL21(DE3) and Comparison of the E. coli B and K-12 Genomes
  106. Power laws in chess
  107. Toolbox model of evolution of prokaryotic metabolic networks and their regulation
  108. Fluctuations in Mass-Action Equilibrium of Protein Binding Networks
  109. Promise and Pitfalls of Extending Google's PageRank Algorithm to Citation Networks
  110. Detection of the dominant direction of information flow and feedback links in densely interconnected regulatory networks
  111. Constraints imposed by non-functional protein–protein interactions on gene expression and proteome size
  112. Algorithmic Basis for Pathway Visualization
  113. Propagation of Concentration Perturbations in Equilibrium Protein Binding Networks
  114. Topological and Dynamical Properties of Protein Interaction Networks
  115. Propagation of large concentration changes in reversible protein-binding networks
  116. Spreading out of perturbations in reversible reaction networks
  117. Ranking scientific publications using a model of network traffic
  118. UV-Induced Mutagenesis in Escherichia coli SOS Response: A Quantitative Model
  119. Better by half
  120. Exploring an opinion network for taste prediction: An empirical study
  121. Finding scientific gems with Google’s PageRank algorithm
  122. Optimal ranking in networks with community structure
  123. Parameters of proteome evolution from histograms of amino-acid sequence identities of paralogous proteins
  124. Role model for modules
  125. Automatic pathway building in biological association networks
  126. Computational architecture of the yeast regulatory network
  127. Binding properties and evolution of homodimers in protein-protein interaction networks
  128. UV-induced mutagenesis in Escherichia coli SOS response: A quantitative model
  129. Diffusion on complex networks: a way to probe their large-scale topological structures
  130. Hierarchy Measures in Complex Networks
  131. The conundrum of stock versus bond prices
  132. Detection of topological patterns in complex networks: correlation profile of the internet
  133. Detection of Topological Patterns in Protein Networks
  134. DOES THE PRICE MULTIPLIER EFFECT ALSO HOLD FOR STOCKS?
  135. Modularity and Extreme Edges of the Internet
  136. Protein interaction networks beyond artifacts
  137. Specificity and Stability in Topology of Protein Networks
  138. Measures of globalization based on cross-correlations of world financial indices
  139. Extracting Hidden Information from Knowledge Networks
  140. Price fluctuations from the order book perspective—empirical facts and a simple model
  141. Quantum and classical dynamics in mixed-spin one-dimensional antiferromagnets
  142. Exact solution of a stochastic directed sandpile model
  143. Measures of Globalization Based on Cross-Correlations of World Financial Indices
  144. Energy Separation of Single-Particle and Continuum States in anS=1/2Weakly Coupled Chains Antiferromagnet
  145. Role of single-ion excitations in the mixed-spin quasi-one-dimensional quantum antiferromagnetNd2BaNiO5
  146. Simple model of a limit order-driven market
  147. Simple Model of a Limit Order-Driven Market
  148. Infrared Studies of the Onset of Conductivity in Ultrathin Pb Films
  149. 1/fNoise in Bak-Tang-Wiesenfeld Models on Narrow Stripes
  150. BaCu2Si2O7: A quasi-one-dimensionalS=1/2antiferromagnetic chain system
  151. Magnetic anisotropy and low-energy spin waves in the Dzyaloshinskii-Moriya spiral magnetBa2CuGe2O7
  152. Probability distribution of drawdowns in risky investments
  153. Experimental Evidence for Kaplan–Shekhtman–Entin-Wohlman–Aharony Interactions inBa2CuGe2O7
  154. Critical exponents of the anisotropic Bak-Sneppen model
  155. Magnetic ordering, spin waves, and Haldane-gap excitations in(NdxY1−x)2BaNiO5linear-chain mixed-spin antiferromagnets
  156. Optimal Investment Strategy for Risky Assets
  157. Universal Behavior of One-Dimensional Gapped Antiferromagnets in a Staggered Magnetic Field
  158. Comment on “Role of Intermittency in Urban Development: A Model of Large-Scale City Formation”
  159. Dynamical optimization theory of a diversified portfolio
  160. Experimental Measurement of the Staggered Magnetization Curve for a Haldane Spin Chain
  161. Expansion Around the Mean-Field Solution of the Bak-Sneppen Model
  162. Field-induced incommensurate-to-commensurate transition inBa2CuGe2O7
  163. Coexistence of Haldane-gap excitations and long-range antiferromagnetic order in mixed-spin nickelatesR2BaNiO5
  164. Square-lattice spiral magnetBa2CuGe2O7in an in-plane magnetic field
  165. Field-Induced Commensurate-Incommensurate Phase Transition in a Dzyaloshinskii-Moriya Spiral Antiferromagnet
  166. Infinite Series of Exact Equations in the Bak-Sneppen Model of Biological Evolution
  167. Avalanche dynamics in evolution, growth, and depinning models
  168. Self-organized critical directed percolation
  169. Exactly Solved Model of Self-Organized Criticality
  170. Laws for Stationary States in Systems with Extremal Dynamics
  171. Time Directed Avalanches in Invasion Models
  172. Field Theory for a Model of Self-Organized Criticality
  173. Avalanches and1fNoise in Evolution and Growth Models
  174. Scaling theory of depinning in the Sneppen model
  175. Field Theory for a Model of Self-Organized Criticality
  176. Correlations, mean-field properties, and scaling of a one-dimensional sandpile model
  177. The First Critical Field and Locking-Unlocking Phase Transition in Layered Superconductors