Genetics

Latest AI and machine learning research in genetics for healthcare professionals.

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Natural variation in IBF1 disrupts its interaction with CHS1 and affects metabolism of hulls in rice

Secondary metabolites in plants have various physiological functions, including antioxidant and anti...

Benchmarking DNA Foundation Models for Genomic and Genetic Tasks

The rapid evolution of DNA foundation models promises to revolutionize genomics, yet comprehensive e...

The promise of AlphaFold for gene structure annotation

As sequencing technology improves, more genomes become available. Most lack annotation, automated me...

Design of TCR-mimicking binders for pHLA with high potency

The rational design of high-specificity binders to peptide–HLA (pHLA) complexes remains a major chal...

CompleteBin: A transformer-based framework unlocks microbial dark matter through improved short contig binning

Metagenomic binning is crucial for reconstructing microbial genomes from metagenomic sequencing samp...

AlphaMissense pathogenicity scores predict response to immunotherapy and enhances the predictive capability of tumor mutation burden

Tumor Mutational Burden (TMB) is a widely used biomarker for selecting cancer patients for immune ch...

DNAi: an open-source AI tool for unbiased DNA fiber analysis

DNA fiber assays are powerful tools for investigating replication dynamics at the single-molecule le...

Robust Prediction of Enzyme Variant Kinetics with RealKcat

Predicting enzyme kinetics directly from sequence remains a central challenge in computational biolo...

Modelling transcription with explainable AI uncovers context-specific epigenetic gene regulation at promoters and gene bodies

Transcriptional regulation involves complex interactions with chromatin-associated proteins, but dis...

Coding for Circuit Integration in the Injured Brain by Transplanted Human Neurons

Neural transplantation holds the potential to repair damaged neural circuits in neurological disease...

Tissue Reassembly with Generative AI

The spatial arrangement of cells is fundamental to their function, but single-cell RNA sequencing lo...

Decoding RNA–RNA Interactions: The Role of Low-Complexity Repeats and a Deep Learning Framework for Sequence-Based Prediction

RNA–RNA interactions (RRIs) are fundamental to gene regulation and RNA processing, yet their molecul...

Neuronal activity triggers widespread changes in RNA stability

Neuronal activity shapes brain development and refines synaptic connectivity in part through dynamic...

FlexRibbon: Joint Sequence and Structure Pretraining for Protein Modeling

Protein foundation models have advanced rapidly, with most approaches falling into two dominant para...

Learning the Language of Phylogeny with MSA Transformer

Classical phylogenetics assumes site independence, potentially overlooking epistasis. Protein langua...

The Impact of Stability Considerations on Genetic Fine-mapping

Fine-mapping methods, which aim to identify genetic variants responsible for complex traits followin...

RNAcomp2D: a visual tool to compare multiple predictions of RNA secondary structure

Ribonucleic acids (RNAs) are involved in many important biological processes. In particular, non-cod...

Benchmarking Perturbation Tools for the Noncoding Genome

Deciphering the functionality of the noncoding genome which includes important cis-regulatory elemen...

Methane Cycling Microbes are Important Predictors of Methylmercury Accumulation in Rice Paddies

Microbial production of methylmercury from inorganic mercury in rice paddies poses health risks to c...

Designing proteins with reduced T-cell epitopes through policy optimization

Deep generative models for protein structure and sequence are increasingly used to design proteins w...

scRGP: Prediction of Single-cell Genetic Perturbation Transcriptional Responses based on Rank in Multiple Scenarios

Single-cell perturbation sequencing technologies (e.g., Perturb-seq, CROP-seq), which integrate CRIS...

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