Article
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Open Access
Featured
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Nature Index |
Four change-makers seek impact in medical research
Bringing fresh perspectives to long-standing health challenges, these scientists are using techniques such as big-data analytics and AI to push the field.
- Amy Coombs
- & Sandy Ong
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News |
‘Wildly weird’ RNA bits discovered infesting the microbes in our guts
Rod-shaped structures named ‘obelisks’ are even smaller than viruses but can still transmit instructions to cells.
- Saima Sidik
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Editorial |
How to share data — not just equally, but equitably
Just as with many natural resources, wealthy countries have been extracting scientific data from poorer nations for centuries. Researchers are changing that.
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Career Column |
Methods section too short? Use online protocols to make complex techniques understandable
New wet-lab methods can be hard to share owing to their complexity, but with a little extra effort, you can give users a leg-up in getting started.
- Lars Borm
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Article
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Ultra-fast deep-learned CNS tumour classification during surgery
Sturgeon is a pretrained neural network that uses incremental results from nanopore sequencing to rapidly classify central nervous system tumours and can be used to aid critical decision-making during surgery.
- C. Vermeulen
- , M. Pagès-Gallego
- & J. de Ridder
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Career Column |
Embracing the command line: my unexpected career in computational biology
A crash course in bioinformatics put Ming Tommy Tang on a different path.
- Ming Tommy Tang
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Career Guide |
How to spice up your bioinformatics skill set with AI
Incorporating machine-learning tools into data analysis can accelerate discovery and free up valuable time.
- Rachael Pells
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Technology Feature |
How open-source software could finally get the world’s microscopes speaking the same language
A plethora of standards mean shareable and verifiable microscopy data often get lost in translation. Biologists are working on a solution.
- Michael Brooks
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News |
Huge cache of mammal genomes offers fresh insights on human evolution
The Zoonomia Project is helping to pinpoint genes responsible for animal-brain size and for human disease.
- Max Kozlov
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Nature Video |
‘Touch-taste’: how the octopus repurposed its nervous system to hunt
Researchers identify the structural basis for octopuses chemo-tactile sense.
- Dan Fox
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Article
| Open Access
An atlas of substrate specificities for the human serine/threonine kinome
Analysis of the kinase activity of 300 protein Ser/Thr kinases reveals that the substrate specificity of the kinome is substantially more diverse than expected and is driven extensively by negative selectivity
- Jared L. Johnson
- , Tomer M. Yaron
- & Lewis C. Cantley
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Career Guide |
Men dominate conference Q&A sessions — including online ones
‘Question and manswer’ sessions are the norm at both in-person and virtual events, even when there’s a good gender balance.
- Anne Gulland
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News Explainer |
Why call it BA.2.12.1? A guide to the tangled Omicron family
Nature explores how subvariants are named, and why none of Omicron’s family members has been upgraded to a ‘variant of concern’.
- Amy Maxmen
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Correspondence |
Africa needs more bioinformaticians for population studies
- Ashraf Akintayo Akintola
- , Ui Wook Hwang
- & Abdullahi Tunde Aborode
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Where I Work |
Staring into the human genome to diagnose COVID
Bioinformatician Lucía Spangenberg is helping to make genetic sequencing available to anyone who needs it.
- Patricia Maia Noronha
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Where I Work |
Gut feeling: building a picture of Latin American microbiomes
Computational microbiologist Gregorio Iraola leads a consortium focused on tailoring public-health interventions for local needs.
- Jack Leeming
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Article |
Clonal dynamics in early human embryogenesis inferred from somatic mutation
Adult human tissues from diverse sites around the body are used to reconstruct cellular phylogenies from early development, using somatic mutations as an internal barcode.
- Seongyeol Park
- , Nanda Maya Mali
- & Young Seok Ju
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News |
Autocorrect errors in Excel still creating genomics headache
Despite geneticists being warned about spreadsheet problems, 30% of published papers contain mangled gene names in supplementary data.
- Dyani Lewis
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Article |
A metabolomics pipeline for the mechanistic interrogation of the gut microbiome
A microbiome-focused metabolomics pipeline and interactive metabolomics profile explorer are a powerful tool for the characterization of gut-resident microorganisms and the interactions between microorganisms and their host.
- Shuo Han
- , Will Van Treuren
- & Justin L. Sonnenburg
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Comment |
Want to track pandemic variants faster? Fix the bioinformatics bottleneck
Tools, rules and incentives are buckling under the flood of coronavirus genome sequences — to help control the pandemic, researchers need new approaches.
- Emma B. Hodcroft
- , Nicola De Maio
- & Christophe Dessimoz
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News |
Give African research participants more say in genomic data, say scientists
Tensions are building in Africa over the rules that govern the donation of biological samples and data to research.
- Linda Nordling
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Editorial |
The next 20 years of human genomics must be more equitable and more open
By re-committing to data sharing, researchers can fulfil the long-delayed promise of the Human Genome Project.
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Article |
The kinetic landscape of an RNA-binding protein in cells
Time-resolved RNA–protein cross-linking with a pulsed femtosecond ultraviolet laser, followed by immunoprecipitation and high-throughput sequencing, enables the determination of binding and dissociation kinetics of the RNA-binding protein DAZL within cells.
- Deepak Sharma
- , Leah L. Zagore
- & Eckhard Jankowsky
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News |
Scientists call for fully open sharing of coronavirus genome data
Other researchers say that restrictions at the largest SARS-CoV-2 genome platform encourage fast sharing while protecting data providers’ rights.
- Richard Van Noorden
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Article |
Neuronal diversity and convergence in a visual system developmental atlas
The neuronal diversity of the Drosophila optic lobe is described throughout pupal development by single-cell sequencing, leading to the discovery of transient extrinsic neurons and a dorsoventral asymmetry of the visual circuits.
- Mehmet Neset Özel
- , Félix Simon
- & Claude Desplan
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Outlook |
Scailyte: simplifying difficult diagnoses
A firm that combines single-cell analysis and neural networks to identify biomarkers for rare diseases has made it on to the shortlist for The Spinoff Prize.
- Eric Bender
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Article |
Determination of RNA structural diversity and its role in HIV-1 RNA splicing
Dimethyl sulfate mutational profiling with sequencing, combined with the newly developed DREEM algorithm, reveals that heterogeneity of RNA structure in HIV-1 regulates the use of splice sites and expression of viral genes.
- Phillip J. Tomezsko
- , Vincent D. A. Corbin
- & Silvi Rouskin
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Letter |
Transcriptional cofactors display specificity for distinct types of core promoters
A screen of 23 transcriptional cofactors for their ability to activate 72,000 candidate core promoters in Drosophila melanogaster identified distinct compatibility groups, providing insight into mechanisms that underlie the selective activation of transcriptional programs.
- Vanja Haberle
- , Cosmas D. Arnold
- & Alexander Stark
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Article |
Single-cell analysis of early progenitor cells that build coronary arteries
During development, new arteries can arise from pre-existing veins; the cell fate switch involved occurs gradually and before the onset of blood flow in mouse embryo hearts.
- Tianying Su
- , Geoff Stanley
- & Kristy Red-Horse
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Letter |
Quantitative microbiome profiling links gut community variation to microbial load
Quantitive microbiome profiling reveals that total microbial load is an important determinant of enterotypes and may be a key driver of microbiota alterations in patients with Crohn’s disease.
- Doris Vandeputte
- , Gunter Kathagen
- & Jeroen Raes
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Letter |
Quantifiable predictive features define epitope-specific T cell receptor repertoires
The authors characterize epitope-specific T cell repertoires, identify shared and recognizable features of TCRs, and develop tools to classify antigen specificity on the basis of sequence analysis.
- Pradyot Dash
- , Andrew J. Fiore-Gartland
- & Paul G. Thomas
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Spotlight |
Spotlight on Bioinformatics
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Article |
Developmental pathway for potent V1V2-directed HIV-neutralizing antibodies
A longitudinal study of an individual patient developing neutralizing antibodies against HIV-1 (targeting the V1V2 region of gp120) reveals how such neutralizing antibodies develop and evolve over time, providing important insights relevant to vaccine development.
- Nicole A. Doria-Rose
- , Chaim A. Schramm
- & John R. Mascola
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Letter |
PAAR-repeat proteins sharpen and diversify the type VI secretion system spike
An X-ray structure of bacterial type VI secretion system components reveals that PAAR family proteins bind at the tip of the VgrG spike, providing new insights into the mechanisms of type VI secretion; experiments using bacteria confirmed the importance of PAAR proteins.
- Mikhail M. Shneider
- , Sergey A. Buth
- & Petr G. Leiman
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Letter |
Extensive transcriptional heterogeneity revealed by isoform profiling
Variation among RNA transcript isoforms can be generated from alternative start and polyadenylation sites, and results in RNAs and proteins with different properties being generated from the same genomic sequence; here a new method termed transcript isoform sequencing is described in yeast, and the method allows a fuller exploration of transcriptome diversity across the compact yeast genome.
- Vicent Pelechano
- , Wu Wei
- & Lars M. Steinmetz
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Outlook |
Interdisciplinary research: Big science at the table
Researchers are adopting the tools of bioinformatics and pharmaceuticals to study and interpret the ever-growing body of data on the interplay between diet and genes.
- Lucas Laursen
The intrinsic substrate specificity of the human tyrosine kinome