Classification and taxonomy articles from across Nature Portfolio

The discipline of classification and taxonomy involves the grouping of organisms into categories based on different properties including size, shape and gene sequences. Classification can help to identify evolutionary relationships among organisms.

Latest Research and Reviews

Research
02 June 2023 | Open Access

Lociq provides a loci-seeking approach for enhanced plasmid subtyping and structural characterization

Lociq is a computational method that generates typing schema for plasmid characterization to aid investigations into the origin, evolution and epidemiology of multidrug resistant plasmids.
- Lucas Harrison
- , Shaohua Zhao
- & Errol Strain
Communications Biology 6, 595
Research
08 May 2023 | Open Access

CoVnita, an end-to-end privacy-preserving framework for SARS-CoV-2 classification
- Jun Jie Sim
- , Weizhuang Zhou
- & Khin Mi Mi Aung
Scientific Reports 13, 7461
Research
06 May 2023 | Open Access

MetaTiME integrates single-cell gene expression to characterize the meta-components of the tumor immune microenvironment

Integration and comparison of multiple single cell sequencing datasets can be used to compare different studies. Here the authors propose MetaTiME which compares the gene expression of single cells from the tumour microenvironment across different tumours and uses transportable labels and metacomponents to annotate cell types and states.
- Yi Zhang
- , Guanjue Xiang
- & Clifford A. Meyer
Nature Communications 14, 2634
Research
05 May 2023 | Open Access

Construction of deep learning-based disease detection model in plants
- Minah Jung
- , Jong Seob Song
- & Yong-Min Kim
Scientific Reports 13, 7331
Research
03 May 2023 | Open Access

Structural atlas of a human gut crassvirus

A cryo-electron microscopy reconstruction of the virus ΦcrAss001 provides insights into the functions of the viral gene products in capsid assembly and infection.
- Oliver W. Bayfield
- , Andrey N. Shkoporov
- & Alfred A. Antson
Nature 617, 409-416
Research
03 May 2023 | Open Access

Intracerebral hemorrhage CT scan image segmentation with HarDNet based transformer
- Zhegao Piao
- , Yeong Hyeon Gu
- & Seong Joon Yoo
Scientific Reports 13, 7208

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News and Comment

News & Views | 30 June 2022

ActiveSVM selects minimal gene sets from gene expression data

Inspired by active learning approaches, we have developed a computational method that selects minimal gene sets capable of reliably identifying cell-types and transcriptional states in large sets of single-cell RNA-sequencing data. As the procedure focuses computational resources on poorly classified cells, active support vector machine (ActiveSVM) scales to data sets with over one million cells.

Nature Computational Science 2, 420-421
News | 11 February 2022

Diversity of microbial defence systems

This month’s Genome Watch highlights the systematic discovery of defence systems, paving the way to decode novel genetic functions and further our understanding of microbial warfare.
- Adrian Cazares
- , Wendy Figueroa
- & Daniel Cazares
Nature Reviews Microbiology 20, 191
News & Views | 17 June 2020

Enzymes knuckle down to the job

A suite of new enzymes reveals more on how Nature breaks down plant-based polysaccharides and how these enzymes might be harnessed in the utilization of plant-based biomass.
- Paul H. Walton
Nature Chemical Biology 16, 815-816
Research Highlights | 04 June 2020

Taxonomy of Bacteria and Archaea

Improvements to the Genome Taxonomy Database provide a complete bacterial and archaeal taxonomy.
- Lin Tang
Nature Methods 17, 562
Research Highlights | 04 March 2020

Learning the diversity of giant viruses

Researchers identify a broad phylogenetic diversity of nucleocytoplasmic large DNA viruses by mining global-scale metagenomics datasets.
- Lei Tang
Nature Methods 17, 253
News & Views | 23 July 2019

Towards a genome-based virus taxonomy

Complementary genomic frameworks for taxonomic classification of viruses infecting bacteria and archaea reveal evolutionary drivers, mosaicism and perspective on the genetic diversity of the tiniest, most abundant biological entities on Earth.
- Emiley A. Eloe-Fadrosh
Nature Microbiology 4, 1249-1250

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Classification and taxonomy articles from across Nature Portfolio

Latest Research and Reviews

Lociq provides a loci-seeking approach for enhanced plasmid subtyping and structural characterization

CoVnita, an end-to-end privacy-preserving framework for SARS-CoV-2 classification

MetaTiME integrates single-cell gene expression to characterize the meta-components of the tumor immune microenvironment

Construction of deep learning-based disease detection model in plants

Structural atlas of a human gut crassvirus

Intracerebral hemorrhage CT scan image segmentation with HarDNet based transformer

News and Comment

ActiveSVM selects minimal gene sets from gene expression data

Diversity of microbial defence systems

Enzymes knuckle down to the job

Taxonomy of Bacteria and Archaea

Learning the diversity of giant viruses

Towards a genome-based virus taxonomy

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