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Modeling analysis from the Global Dietary Database estimated that 70% of new global cases of type 2 diabetes are attributable to suboptimal intake of 11 dietary factors, with substantial differences in dietary risks across world regions and nations.

Scientists find that spongin, a key biomaterial in sponges, contains the same collagens as mammals and that these biocomposites contain brominated crosslinks. Now, the question: “Maybe we are all sponge to some degree?” is no longer so absurd.

Small-scale ocean dynamics can have wide reaching impacts on the larger-scale ocean circulation. Using temperature and velocity data, this study shows the presence of abyssal vortices in the Eastern Mediterranean basin, adding complexity to the structure and evolution of water masses in this region.

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

Chemical abundances derived from infrared nebular lines reveal strongly depressed metallicities in interacting galaxies, suggesting that in luminous infrared galaxies chemical enrichment and stellar-mass growth take place through mergers, which drive these galaxies out of equilibrium.

Deep learning for medical image analysis is a promising new avenue to predict treatment response, however the clinical application of these methods has been so far limited. Here, the authors propose a model to predict chemotherapy response in breast cancer in real world clinical settings.

The health benefits of massage therapy, like the reduction of stress, have so far only been shown in humans. This study uses modelling to demonstrate that, while visiting cleaner fish to have ectoparasites removed, the physical stimulation also acts to reduce stress in the coral reef fish,Ctenochaetus striatus.

Strong interaction is blind to quark flavor, so collisions of nuclei with the same number of protons and neutrons should generate the same number of charged and neutral kaons. Here, instead, the authors show a significant excess of charged over neutral kaon production in Ar+Sc nuclei collisions, compatibly with earlier measurements which however suffered from larger uncertainties, and show that known effects cannot explain the result.

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.

Hot carrier transport in organic systems has remained elusive due to rapid energy relaxation and limited transport properties. Here highly mobile hot carriers and their relaxation dynamics are reported in a crystalline two-dimensional conjugated coordination polymer, revealing two distinct transport regimes.

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.

Stratified medicine promises to tailor treatment for individual patients, however it remains a major challenge to leverage genetic risk data to aid patient stratification. Here the authors introduce an approach to stratify individuals based on the aggregated impact of their genetic risk factor profiles on tissue-specific gene expression levels, and highlight its ability to identify biologically meaningful and clinically actionable patient subgroups, supporting the notion of different patient ‘biotypes’ characterized by partially distinct disease mechanisms.

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.

In the first results from an ongoing global cancer screening data repository, screening program organization was better overall in Europe compared to other continents; however, there were substantial gaps in implementation across both high- and low-resource settings.

Understanding deregulation of biological pathways in cancer can provide insight into disease etiology and potential therapies. Here, as part of the PanCancer Analysis of Whole Genomes (PCAWG) consortium, the authors present pathway and network analysis of 2583 whole cancer genomes from 27 tumour types.

Analyses of 2,658 whole genomes across 38 types of cancer identify the contribution of non-coding point mutations and structural variants to driving cancer.

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.

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.

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.

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.

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.

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.

Frogs are an ancient and ecologically diverse group of amphibians that include important model systems. This paper reports genome sequences of multiple frog species, revealing remarkable stability of frog chromosomes and centromeres, along with highly recombinogenic extended subtelomeres.

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.

Whole-genome sequencing and phenotype data sharing are introduced in a national health system to streamline diagnosis and to discover coding and non-coding variants that cause rare diseases.

Mutations in the NRF2-KEAP1 pathway is found to be related with therapeutic resistance and poor outcomes of non-small cell lung cancer (NSCLC). Here this group reports that cystine/glutamate antiporter system xc−, controlled by NRF2, can be non-invasively imaged by positron emission tomography thereby providing a sensitive and specific marker of NRF2 activation in advanced preclinical models of NSCLC.

Given the absence of a major river system in the Western Sahara, the source of late Quaternary fluvial sediments along the West African margin remains unclear. Here, the authors present geomorphological data that reveal the existence of a large buried paleodrainage network on the Mauritanian coast.

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.

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.

The flagship paper of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium describes the generation of the integrative analyses of 2,658 cancer whole genomes and their matching normal tissues across 38 tumour types, the structures for international data sharing and standardized analyses, and the main scientific findings from across the consortium studies.

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.

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.

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.

Sulfur is abundant in the Universe, but the observed abundance ratio of SH to H₂S doesn’t agree with astrochemical models. The authors measure product state-resolved translational energy spectra of photoproducts in a jet-cooled H₂S beam as a function of wavelength, showing that SH yield is lower than assumed in the models.

Gender-based violence is widespread, affecting women and men worldwide. Stein et al. use a meta-analysis and the Burden of Proof methodology to evaluate associations between gender-based violence and eight health outcomes, including major depressive disorder, substance use and reproductive health.

Metagenomic analyses of European pig and poultry farms show differing resistome profiles and an association with country-level antibiotic use.

Group 2 Innate lymphoid cells (ILC2) are a source of type 2 cytokines, such as interleukin-5 (IL-5). Here Troch, Jakob et al. show a non-redundant role of ILC2-derived IL-5 required for the development and function of a subset of murine B cells.

The identification of two cryptic species of the fungal pathogen that causes white-nose disease in bats highlights the need to integrate studies of genetic variability in pathogens into disease surveillance, management and prevention strategies.

The surface of active asteroid (3200) Phaethon, parent body of the Geminid meteor shower, reaches temperatures sufficient to destabilize hydrated materials. Here, the authors show that the northern hemisphere and the equatorial region of this asteroid reveal no evidence of hydration in the near-infrared spectra.

Around the world, more than a billion children are regularly exposed to violence or neglect. Flor et al. systematically review evidence that links childhood physical violence, psychological violence and neglect to increased risks for 14 health outcomes.