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Low-frequency quasiperiodic oscillations in X-ray data are thought to trace the accretion flow in X-ray binaries. Here, the detection of 200 keV oscillations probes the innermost regions of MAXI J1820+070, revealing the precession of a small-scale jet.

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.

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.

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.

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.

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.

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

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.

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.

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.

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.

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.

Genome-wide association studies (GWAS) have improved our understanding of the genetic basis of lung adenocarcinoma but known susceptibility variants explain only a small fraction of the familial risk. Here, the authors perform a two-stage GWAS and report 12 novel genetic loci associated with lung adenocarcinoma in East Asians.

Li et al. characterized the gene GRAVITROPISM LOSS 1 (OsGLS1) in rice, which regulates root system architecture (RSA) to enhance nutrient uptake and yield. OsGLS1 promotes the degradation of OsPIN2, influencing auxin transport and root growth patterns.

Although higher harmonic generation from solids has become of interest in many fields, its observation is typically limited to crystalline solids. Here, the authors demonstrate that higher harmonics can be generated from amorphous solids.

The mystery of the missing bound states within a superconducting vortex in a pnictide superconductor has been solved. Not only are bound states present, they also provide information on the gap structure of Ba_0.6K_0.4Fe₂As₂.

The feasibility of satellite-assisted quantum communication is demonstrated by a field test on the ground. To supress noise due to sunlight the wavelength of 1,550 nm is chosen, and spectrum and spatial filtering technology developed.

The role of soil health in crop productivity and environmental sustainability is often overlooked. Using a 0.5° × 0.5° global dataset, this study shows that soil health accounts for 12% of yield variation and 22% of nitrogen use efficiency variation. Enhancing global soil health could increase yields by 7.8 Mt and cut nitrogen surplus by 8.1 Mt by 2050.

Variation in DNR1, a negative regulator of nitrate-use efficiency, contributes to a stronger response to elevated CO₂ levels in indica rice than in japonica rice. This finding could inform breeding efforts to enhance rice yields as CO₂ levels rise.

Pancreatic ductal adenocarcinoma (PDAC) is a highly aggressive metastatic disease characterized by an immunosuppressive microenvironment. Here the authors show that a subset of P2RX1-negative neutrophils with immunosuppressive properties accumulate in PDAC metastatic liver tissues and promote tumor growth.

China operates a national surveillance program for acute respiratory infections and sampled over 200,000 patients between 2009–2019. Here, the authors present results from this program and describe patterns by age, pathogen type, presence of pneumonia, and season.

A gene-edited pig liver transplanted into a human recipient remains functional after 10 days and indicates that porcine organs could help meet the growing demand for liver transplants.

Zhangjun Fei and colleagues report the draft genome of a Chinese elite watermelon inbred line 97103 and resequencing of 20 diverse accessions that represent the three subspecies of Citrullus lunatus. Comparative genome-wide analyses identify the extent of genetic diversity and population structure of watermelon germplasm.

A large genome-wide association study of more than 5 million individuals reveals that 12,111 single-nucleotide polymorphisms account for nearly all the heritability of height attributable to common genetic variants.

Responses to SARS-CoV-2 vaccines in different populations are important to define efficacy. Here the authors show using a cohort in Singapore that two doses of mRNA vaccine is less effective in recipients over 60 years of age and that a further dose of vaccine can improve these antibody levels.

CRISPR-Cas12a is a promising system for targeting AT-rich regions of the genome. Here the authors identify Cas12a orthologs with expanded targeting scope and develop a highly multiplexable editing system in rice.

Chromosome-level genome assemblies of allotetraploid Nicotiana tabacum and its ancestors, along with their transcriptomes, epigenomes and genotype and phenotype data for 5,196 N. tabacum germplasms, provide insights into genome evolution and complex trait regulation.

Codon 158 gain-of-function mutant p53 (158-mutp53) promotes tumourigenesis in lung cancer. Here, the authors show that 158-mutp53 render cancers sensitive to cisplatin and p53 acetylation agents through a mechanism where acetylated mutant p53 upregulates TRAIP and inhibits NF-ĸB signaling.

Devices based on microbial biofilms can be used to generate hydrovoltaic energy from water evaporation. Here, Ren et al. show that, in addition, electroautotrophic bacteria can use evaporation-induced hydrovoltaic electrons for growth in biofilms.

Existing isokinetic training devices are often heavy, bulky, and energy-consuming, which limits the rehabilitation opportunities only at designated hospitals. Here, the authors show a highly integrated and power-free knee rehabilitation robot that can provide home-based isokinetic training

Spatiotemporal control over the assembly of intracellular peptide nanofibres using visible light is reported. The photolysis-promoted monomer generation correlates the structure formation kinetics to the toxicity in cells.

Jun Wang and colleagues report the genome sequence of the cucumber. The cucumber genome is the seventh plant genome sequence to be reported and was assembled with a combination of traditional Sanger and next-generation sequencing methods.

A quantum microsatellite, with a payload weighing only 23 kilograms, in combination with portable ground stations that weigh merely 100 kilograms, is capable of performing space-to-ground real-time quantum key distribution.

Oxidized phosphatidylcholines found in MS lesions are not just markers of oxidative stress but are also promoters of demyelination and axon injury. Microglia suppress oxidized-phosphatidylcholine-mediated neurodegeneration by phagocytosis through TREM2.

A novel resistance gene against maize rough dwarf disease was identified, which confers broad resistance to the virus pathogen infecting multiple cereal crops by regulating jasmonic acid (JA) biosynthesis and JA-mediated defence response.

Whether hippocampal place cells are unique in their representation of spatial information utilized during body navigation remains unknown. Here authors report monkey cells in the premotor cortex exhibit similar position fields which encode hand position during a reaching task.

To keep radiation therapy from damaging healthy tissue, expert radiologists have to segment CT scans into individual organs. A new deep learning-based method for delineating organs in the area of head and neck performs faster and more accurately than human experts.

The global race to a net-zero economy depends heavily on lithium—to power electric vehicles and to store renewable energy. Here the authors show a selective lithium extraction process from salt-lake brines, together with magnesium utilization.

Eurasian grasslands have high production sensitivity to extreme drought compared with North American grasslands.

How RNA polymerase II subunits enter the nucleus is not well understood. Here, the authors show that Transport and Golgi organization protein 6, TANGO6, recruits RNA polymerase II subunit B2, RPB2, to the ER membrane in a retrograde manner and transports it to the nucleus with the aid of importins.

The genome sequences of 175 Ebola virus from five districts in Sierra Leone, collected during September–November 2014, show that the rate of virus evolution seems to be similar to that observed during previous outbreaks and that the genetic diversity of the virus has increased substantially, with the emergence of several novel lineages.

Ren et al. generate a panel of monoclonal antibodies (mAbs) that recognize distinct epitopes on the glycoprotein Gn and neutralize severe fever with thrombocytopenia syndrome virus (SFTSV) by diverse mechanisms. One most potent mAb targeting the Gn domain I provides protection against lethal SFTSV infection in mice.