bioRxiv

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A Machine Learning Approach Reveals CRISPR-Cas I-F as a Genomic Marker of Antibiotic Susceptibility in Uropathogenic E. coli

bioRxiv Jan 1, 2025
Antimicrobial resistance (AMR) in Escherichia coli is a critical global health challenge, particularly in urinary tract infections, where first-line treatments are increasingly compromised. While horizontal gene transfer (HGT) via mobile genetic elem...
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Hyperspectral image analysis for classification of multiple infections in wheat

bioRxiv Jan 1, 2025
Plant diseases can cause heavy yield losses in arable crops resulting in major economic losses. Effective early disease recognition is paramount for modern large-scale farming. Since plants can be infected with multiple concurrent pathogens, it is im...
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The Multiple Approaches for Drug-Drug Interaction Extraction using Machine learning and transformer based Model

bioRxiv Jan 1, 2025
This research paper investigates a machine learning based approach for Drug-Drug Interaction (DDI) extraction for determining the side effects of multi drugs when prescribed simultaneously. In our proposed model we used TAC 2017 Dataset, which has Ad...
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Non-Carbohydrate Inhibitors of Sialic Acid-binding Immunomodulatory-type Lectin-7 (Siglec-7) Discovered from Genetically Encoded Bicyclic Peptide Libraries

bioRxiv Jan 1, 2025
Glycan-binding proteins (GBP) are among the most difficult to drug targets. This deficiency delays clinical progress for therapeutically important GBPs. We employed bicyclic genetically encoded libraries (BiGELs), produced by chemical modification of...
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Uncovering the Mechanistic Landscape of Regulatory DNA with Deep Learning

bioRxiv Jan 1, 2025
The regulatory genome encodes the logic that governs gene expression, enabling cells to respond to developmental, environmental, and evolutionary cues. This logic arises from complex cis-regulatory mechanisms that integrate transcription factor motif...
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Machine learning driven acceleration of biopharmaceutical formulation development using Excipient Prediction Software (ExPreSo)

bioRxiv Jan 1, 2025
Formulation development of protein biopharmaceuticals has become increasingly challenging due to new modalities and higher target drug substance concentrations. The limited amount of drug substance available during development, coupled with extensive...
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GatorAffinity: Boosting Protein-Ligand Binding Affinity Prediction with Large-Scale Synthetic Structural Data

bioRxiv Jan 1, 2025
Protein–ligand binding affinity prediction is a fundamental task in computational drug discovery. Although substantial efforts have been made to enhance prediction accuracy using data-driven approaches, progress remains limited by persistent data sca...
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Phenotypic AI-based design of cell-specific small molecule cytotoxics

bioRxiv Jan 1, 2025
Drug discovery is being transformed by artificial intelligence, which enables the exploration of vast chemical spaces and the generation of novel compounds with tailored properties. While most generative approaches focus on optimizing physicochemical...
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Improved sensory representations as a result of temporal adaptation

bioRxiv Jan 1, 2025
Human perception is robust under challenging conditions, for example when sensory inputs change over time. Temporal adaptation in the form of reduced responses to repeated external stimuli is ubiquitously observed in the brain, yet it remains unclear...
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FUSED: Cross-Domain Integration of Foundation Models for Cancer Drug Response Prediction

bioRxiv Jan 1, 2025
AI-driven methods for predicting drug responses hold promise for advancing personalized cancer therapy, but cancer heterogeneity and the high cost of data generation pose substantial challenges. Here we explore the transfer learning capability and in...
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