Computational biology and bioinformatics articles from across Nature Portfolio
Computational biology and bioinformatics is an interdisciplinary field that develops and applies computational methods to analyse large collections of biological data, such as genetic sequences, cell populations or protein samples, to make new predictions or discover new biology. The computational methods used include analytical methods, mathematical modelling and simulation.
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Highly efficient enzymes designed from scratch
A computational workflow designs proteins with catalytic efficiencies comparable to those of some natural enzymes — a landmark result for the field.
- Zhuofan Shen
- Sagar D. Khare
News & ViewsNatureDecoding 3D cell morphology with interpretable point cloud models
The morphology of fragmented cellular structures can be captured by converting microscopy images to 3D point clouds and analyzing them with rotation-invariant deep-learning models. These compact models represent a powerful alternative to conventional pixel-based analysis pipelines because they achieve high reconstruction and classification accuracies while remaining fast and biologically interpretable.
- Siewert Hugelier
Unbalanced gene-level batch effects in single-cell data
We developed group technical effects (GTE) as a quantitative metric for evaluating gene-level batch effects in single-cell data. It identifies highly batch-sensitive genes — the primary contributors to batch effects — that vary across datasets, and whose removal effectively mitigates the batch effects.
Related Subjects
- Biochemical reaction networks
- Cellular signalling networks
- Classification and taxonomy
- Communication and replication
- Computational models
- Computational neuroscience
- Computational platforms and environments
- Data acquisition
- Data integration
- Data mining
- Data processing
- Data publication and archiving
- Databases
- Functional clustering
- Gene ontology
- Gene regulatory networks
- Genome informatics
- Hardware and infrastructure
- High-throughput screening
- Image processing
- Literature mining
- Machine learning
- Microarrays
- Network topology
- Phylogeny
- Power law
- Predictive medicine
- Probabilistic data networks
- Programming language
- Protein analysis
- Protein design
- Protein folding
- Protein function predictions
- Protein structure predictions
- Proteome informatics
- Quality control
- Scale invariance
- Sequence annotation
- Software
- Standards
- Statistical methods
- Virtual drug screening
Latest Research and Reviews
Identification of potential shared core biomarkers in type 2 diabetes and sarcopenia
- Ping Zhang
- Yijun Du
- Tianrong Pan
Molecular and genomic insights into multidrug-resistant (MDR) and extensively drug-resistant (XDR)Pseudomonas aeruginosa causing burn wound infections in Bangladesh
- Spencer Mark Mondol
- Md. Rafiul Islam
- Md. Mizanur Rahaman
Will AI become our Co-PI?
- Dillan Prasad
- Aditya Khandeshi
- Christopher Ahuja
AI-driven smart agriculture using hybrid transformer-CNN for real time disease detection in sustainable farming
- Zhuo Zeng
- Tariq Mahmood
- Muhammad Akram Mujahid
A generative model uses healthy and diseased image pairs for pixel-level chest X-ray pathology localization
A generative model provides a dataset of registered disease and healthy image pairs for chest X-ray interpretation and clinical diagnosis.
- Kaiming Dong
- Yuxiao Cheng
- Jinli Suo
Generative AI enables medical image segmentation in ultra low-data regimes
The use of deep learning in medical image segmentation is limited by the low availability of annotated images. Here, the authors develop GenSeg, a generative deep learning framework that can generate high-quality paired segmentation masks and medical images that can improve the performance of segmentation models under ultra low-data regimes across multiple scenarios.
- Li Zhang
- Basu Jindal
- Pengtao Xie
News and Comment
Optimizing AI solutions for population health in primary care
Artificial intelligence (AI) has primarily enhanced individual primary care visits, yet its potential for population health management remains untapped. Effective AI should integrate longitudinal patient data, automate proactive outreach, and mitigate disparities by addressing barriers such as transportation and language. Properly deployed, AI can significantly reduce administrative burden, facilitate early intervention, and improve equity in primary care, necessitating rigorous evaluation and adaptive design to realize sustained population-level benefits.
- Sanjay Basu
- Pablo Bermudez-Canete
- Pranav Rajpurkar
Scientists hide messages in papers to game AI peer review
Some studies containing instructions in white text or small font — visible only to machines — will be withdrawn from preprint servers.
- Elizabeth Gibney
NewsNatureCalling all data
As life sciences research becomes enmeshed in the age of AI, real experimental data are more valuable than ever.
Highly efficient enzymes designed from scratch
A computational workflow designs proteins with catalytic efficiencies comparable to those of some natural enzymes — a landmark result for the field.
- Zhuofan Shen
- Sagar D. Khare
News & ViewsNatureWill AI speed up literature reviews or derail them entirely?
The publication of ever-larger numbers of problematic papers, including fake ones generated by artificial intelligence, represents an existential crisis for the established way of doing evidence synthesis. But with a new approach, AI might also save the day.
- Sam A. Reynolds
- Alec P. Christie
- William J. Sutherland