bioRxiv SysBio
@biorxiv_sysbio
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Joined June 2016
Predicting Real-life Drinking Scenarios through a Physiological Digital Twin Incorporating Secondary Alcohol Markers https://t.co/eahKvAFSSB
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Alcohol consumption poses significant societal challenges, necessitating accurate tools for detecting at-risk drinking. Various biomarkers reflect alcohol intake over different timeframes. Blood...
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Characterizing spatial functional microniches with SpaceTravLR https://t.co/fPDxXi62Wz
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biorxiv.org
The advent of spatial omics has revolutionized our understanding of tissue biology; however, these technologies remain largely descriptive and do not capture how changes in gene regulation propagate...
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Self-Organization Through Local Cell-Cell Communication Drives Intestinal Epithelial Zonation https://t.co/5002C8JQ0m
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biorxiv.org
The intestinal epithelium exhibits zonated gene expression along the crypt-villus axis, with distinct transcriptional programs in enterocytes located at the top versus the bottom of the villus....
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A Novel Prognostic Metric Resolves the MYCN enigma in Silico and Points to a Biosynthetic Regulatory Shift Driven by MYCN ... https://t.co/dZMPSxJgUH
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Gut Microbiota-derived Adenosine Determines the Efficacy of Electroconvulsive Therapy for Depression https://t.co/cokXuJKjRm
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Analytical Solutions for the Time-Dependent Dynamics of Stochastic Gene Expression with mRNA-sRNA Interactions https://t.co/IKuyDo8NU6
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Storing long-lived memories via molecular error correction: a minimal mathematical model of Crick's memory switch https://t.co/7I8vg98Ld4
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Molecular memory storage mechanisms face two serious obstacles: they must be robust to the intrinsic noise characteristic of molecular-scale processes, and they must rely on components (like protei...
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Microbial Cell-Adaptive Segmentation in Quantitative Phase Imaging https://t.co/fub6dOiDtl
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biorxiv.org
Quantitative phase imaging (QPI) enables label-free microscopy with exceptional signal-to-background contrast and provides direct measurements of key biophysical parameters such as cell mass. Despite...
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Towards modeling in Large-Scale Genetic and Metabolic Networks https://t.co/pqIkSkCj1s
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Using AI-MIDD for Mechanistic Erythropoietin Modeling: A Digital-Twin Framework for Optimizing ESA Therapies https://t.co/UGYSOoypeY
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Redefining Housekeeping Genes in the Context of Vertebrate Development https://t.co/yH76uwMQXv
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From plasmid sequence to process design: A computational analysis of metabolism in the context of plasmid DNA manufacturing https://t.co/8XecXVCpZj
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Single-Islet Proteomics Maps Pseudo-Temporal Islet Immune Responses and Dysfunction in Stage 1 Type 1 Diabetes https://t.co/HEbJrJgZxX
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biorxiv.org
Progressive beta-cell dysfunction precedes the onset of type 1 diabetes (T1D), yet the molecular mechanisms driving early T1D development remain poorly understood. Although single-cell RNA-sequencing...
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Systematic structural and functional analysis of metal-binding sites in native proteomes https://t.co/u57HzvXbqs
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A Quantitative Design Guideline for Biomolecular Positive Feedback Systems https://t.co/sHt9p3SI9P
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biorxiv.org
Feedback is at the core of biological systems found in medicine and in biotechnology. While design metaphors from control engineering are widely used to understand negative feedback in such systems,...
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Computational Cellular Programming: In Silico Modeling of Direct and Reprogrammed Hepatic Lineage Induction via Gene Regulatory and ... https://t.co/eSHyiW9oqP
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biorxiv.org
Understanding how cellular identity emerges from regulatory and energetic interactions remains a central question in developmental and synthetic biology. Here, we introduce a computational framework...
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Scalable imaging-based profiling of CRISPR perturbations with protein barcodes https://t.co/9SLZ51Ab2a
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biorxiv.org
Imaging-based CRISPR screens enable high-content functional genomics by capturing phenotypic changes in cells after genetic perturbation. Protein barcodes provide cost-effective, easy-to-implement,...
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Androgen receptor activation stabilizes a hybrid epithelial/mesenchymal phenotype in presence of Notch-Jagged signaling https://t.co/Ck5aALgmpJ
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biorxiv.org
Metastasis is a key cause of mortality in cancer. It is driven majorly by clusters of circulating tumor cells which are often comprised of cells in a hybrid epithelial/mesenchymal (E/M) phenotype....
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Ecological and Stochastic Determinants of the Growth and Persistence of the Oral Pathogen Porphyromonas gingivalis https://t.co/4kbOXutgZi
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biorxiv.org
Population density plays a critical role in microbial fitness, yet its influence on pathogen colonization and persistence remains incompletely understood. Porphyromonas gingivalis (Pg) exhibits...
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Beyond synthetic lethality in large-scale metabolic and regulatory network models via genetic minimal intervention sets https://t.co/kASWbyetmk
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biorxiv.org
Motivation: The integration of genome-scale metabolic and regulatory networks has received significant interest in the field of Cancer Systems Biology. However, the identification of lethal genetic...
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