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A pan-cancer genomic analysis reports the effects of structural variations on chromatin domains (TADs). Most TAD disruptions do not result in appreciable changes in expression of nearby genes.

High-depth sequencing of non-cancerous tissue from patients with metastatic cancer reveals single-base mutational signatures of alcohol, smoking and cancer treatments, and reveals how exogenous factors, including cancer therapies, affect somatic cell evolution.

Analysis of cancer genome sequencing data has enabled the discovery of driver mutations. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium the authors present DriverPower, a software package that identifies coding and non-coding driver mutations within cancer whole genomes via consideration of mutational burden and functional impact evidence.

Multi-omics datasets pose major challenges to data interpretation and hypothesis generation owing to their high-dimensional molecular profiles. Here, the authors develop ActivePathways method, which uses data fusion techniques for integrative pathway analysis of multi-omics data and candidate gene discovery.

Whole-genome sequencing data for 2,778 cancer samples from 2,658 unique donors across 38 cancer types is used to reconstruct the evolutionary history of cancer, revealing that driver mutations can precede diagnosis by several years to decades.

An analysis of 2,954 genomes from 38 cancer subtypes identified 19,166 retrotransposition events in 35% of samples. Aberrant LINE-1 retrotranspositions can lead to the deletion of tumor-suppressor genes as well as the amplification of oncogenes.

In this study the authors consider the structural variants (SVs) present within cancer cases of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium. They report hundreds of genes, including known cancer-associated genes for which the nearby presence of a SV breakpoint is associated with altered expression.

Antiferromagnets offer the potential for higher speed and density than ferromagnetic materials for spintronic devices. Here, Reimers et al study the domain structure of CuMnAs, demonstrating the role of defects in stabilizing the location and orientation of antiferromagnetic domain walls.

In somatic cells the mechanisms maintaining the chromosome ends are normally inactivated; however, cancer cells can re-activate these pathways to support continuous growth. Here, the authors characterize the telomeric landscapes across tumour types and identify genomic alterations associated with different telomere maintenance mechanisms.

Whole-genome sequencing data from more than 2,500 cancers of 38 tumour types reveal 16 signatures that can be used to classify somatic structural variants, highlighting the diversity of genomic rearrangements in cancer.

Fine-mapping of causal variants and integration of epigenetic and chromatin conformation data identify likely target genes for 150 breast cancer risk regions.

Shwachman-Diamond syndrome (SDS) is a leukemia predisposition disorder that is caused by defective release of eIF6 during ribosome assembly. Here the authors show that acquired somatic EIF6 mutations are frequent in the hematopoietic cells from individuals with SDS and provide a selective advantage over non-modified cells.

Integrative analyses of transcriptome and whole-genome sequencing data for 1,188 tumours across 27 types of cancer are used to provide a comprehensive catalogue of RNA-level alterations in cancer.

The authors present SVclone, a computational method for inferring the cancer cell fraction of structural variants from whole-genome sequencing data.

Observations of a fast X-ray transient reveal that it is a gamma-ray-burst explosion from a very distant galaxy that emits light with the wavelength necessary to drive cosmic reionization, the last major phase change in the history of the Universe.

BRCA1 and BRCA2 are well known breast cancer predisposition genes, however, many variants have not yet been classified for their pathogenicity. Here, the authors analyse a large combined cohort to provide evidence of variant pathogenicity.

There’s an emerging body of evidence to show how biological sex impacts cancer incidence, treatment and underlying biology. Here, using a large pan-cancer dataset, the authors further highlight how sex differences shape the cancer genome.

Viral pathogen load in cancer genomes is estimated through analysis of sequencing data from 2,656 tumors across 35 cancer types using multiple pathogen-detection pipelines, identifying viruses in 382 genomic and 68 transcriptome datasets.

Some cancer patients first present with metastases where the location of the primary is unidentified; these are difficult to treat. In this study, using machine learning, the authors develop a method to determine the tissue of origin of a cancer based on whole sequencing data.

This study examines the tempo and drivers of penguin diversification by combining genomes from all extant and recently extinct penguin lineages, stratigraphic data from fossil penguins and morphological and biogeographic data from all extant and extinct species. Together, these datasets provide new insights into the genetic basis and evolution of adaptations in penguins.

The climate impact of aviation results largely from contrail-cirrus clouds. This study shows that most contrail-cirrus exist within natural cirrus clouds. Depending on cloud properties, their climate effects may range from additional warming to cooling.

Many tumours exhibit hypoxia (low oxygen) and hypoxic tumours often respond poorly to therapy. Here, the authors quantify hypoxia in 1188 tumours from 27 cancer types, showing elevated hypoxia links to increased mutational load, directing evolutionary trajectories.

Cancers evolve as they progress under differing selective pressures. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Consortium, the authors present the method TrackSig the estimates evolutionary trajectories of somatic mutational processes from single bulk tumour data.

There has been a lack of multi-year landscape-scale studies on the effect of neonicotinoids on honeybee health. Here, Osterman et al. show that clothianidin exposure via seed-treated rapeseed has no negative impact on honeybee colony development, microbial pathogens/symbionts or immune gene expression.

Laser cooling has been a successful technique to cool atoms and diatomic molecules to very low temperatures. Here, using an external cavity for an improved light coupling, Asenbaum et al.achieve the cooling of much larger objects, silicon nanoparticles, and reduce their transverse kinetic energy by up to a factor of 30.

The spectrum of a quasar at redshift 7.04 reveals absorption from a large column of foreground neutral hydrogen with no corresponding heavy elements; this absorbing gas is either diffuse and intergalactic but has not yet been ionized by starlight at this early epoch, or it is gravitationally bound to a proto-galaxy that has a chemical abundance <1/10,000 the solar level.

The characterization of 4,645 whole-genome and 19,184 exome sequences, covering most types of cancer, identifies 81 single-base substitution, doublet-base substitution and small-insertion-and-deletion mutational signatures, providing a systematic overview of the mutational processes that contribute to cancer development.

With the generation of large pan-cancer whole-exome and whole-genome sequencing projects, a question remains about how comparable these datasets are. Here, using The Cancer Genome Atlas samples analysed as part of the Pan-Cancer Analysis of Whole Genomes project, the authors explore the concordance of mutations called by whole exome sequencing and whole genome sequencing techniques.

It is unclear whether species’ responses to climate change tend to be adaptive or sufficient to keep up with climate change. Here, Radchuk et al. perform a meta-analysis showing that in birds phenology has advanced adaptively in some species, though not all the way to the new optima.

Some structures, such as mammalian forelimbs and bird wings, are obviously homologous, but the basis of this is often elusive as the developmental genes involved are not homologous. The author argues that it is instead the gene regulatory networks that are homologous.

Experiments in the United States, Great Britain and Canada show that fact-checks can reduce belief in misperceptions about COVID-19, especially among the groups who are most vulnerable to these claims. However, these effects do not persist over time.

Sensor failures and limited resolution challenge many complex systems. Here, authors develop a multimodal AI method to generate super-resolution of a sensor using other available sensors in the system, revealing hidden dynamics in fusion plasmas and enabling cost-effective, high-resolution diagnostics.

Chan et al. generate a high-resolution spatiotemporal atlas of healing hearts and reveal cellular networks of lesion repair, including macrophage–fibroblast interactions that control late-stage fibrosis and immune niches that induce cardiomyocyte de-differentiation.

Mantle cell lymphoma (MCL) is a form of B-cell non-Hodgkin lymphoma with a high degree of genetic and clinical heterogeneity. Here, using a multi-omics approach, the authors investigate genetic alterations in association with the tumour microenvironment to identify potential therapeutic vulnerabilities.

This study integrates classical and modern genetics to show that the ebony gene is linked to the black pupae phenotype in tephritids, offering new insights into Ebony’s role in the evolutionary developmental biology of this diverse group of flies

Using avian trait data and genomic data, the authors infer whether changes in net effective population size over time in response to climate change are correlated with multiple morphological and life history traits; they find that larger-bodied, slower-reproducing species with limited dispersal capacity are most sensitive to changes in warming and cooling climates.

Spectroscopy from the JWST Advanced Deep Extragalactic Survey of a galaxy at redshift 13 shows a singular, bright emission line identified as Lyman-α, suggesting the onset of reionization only 330 Myr after the Big Bang.

In a glassy system, a distribution of relaxation times indicates a system that continues to rearrange itself. Besides the main relaxations involved in the glass transition, there are faster dynamics associated with secondary relaxations, which are predicted to reconfigure structures that are stringy rather than tightly clustered.

Renn and Gharib experimentally investigate the application of reinforcement learning to provide integrated flow information for aerodynamic control of a wing system in a highly turbulent environment. The results can inform future gust mitigation systems for unmanned aerial vehicles and wind turbines.