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Spotiflow uses deep learning for subpixel-accurate spot detection in diverse 2D and 3D images. The improved accuracy offered by Spotiflow enables improved biological insights in both iST and live imaging experiments.

Current digital hardware struggles with high computational demands in applications such as probabilistic AI. Here, authors present a small-scale thermodynamic computer composed of eight RLC circuits, demonstrating Gaussian sampling and matrix inversion, suggesting potential speed and energy efficiency advantages over digital GPUs.

A climatic record from desert speleothems shows that the central Arabian interior experienced recurrent humid intervals over the past 8 million years, which likely facilitated mammalian dispersals between Africa and Eurasia.

A photoreceptor-controlled carbon metabolism pathway in microalgae has been discovered. Blue light, sensed by phototropin, dephosphorylates Phototropin-Mediated Signalling Kinase 1 (PMSK1), repressing starch accumulation in Chlamydomonas reinhardtii.

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.

Stimulated Raman scattering limits the energy of dissipative solitons by converting excess energy into noisy Raman pulses. Using delay compensation, Babin et al. demonstrate that these noisy pulses can become coherent Raman dissipative solitons leading to the formation of multicolour bound dissipative soliton complexes.

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.

Oncofetal (OnF) reprogramming, driven by YAP and AP-1, induces phenotypic plasticity and therapy resistance in WNT-dependent colorectal cancer (CRC). Targeting the OnF state in combination with chemotherapy substantially attenuates tumor growth in mouse models and patient-derived CRC tumoroids.

Understanding how biosilica forms is crucial to our knowledge of this important biomaterial. Now, the role of collagen as structuring agent for the metre-long spicules of a primitive glass sponge has been revealed and found to have an unusual peptide motif.

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.

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

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.

Discotic liquid crystals are materials with high charge-carrier mobility, which are promising for molecular electronics. They self-organize into stacks, usually with a twist of 30^∘, but the shape and periphery of the molecules can now be altered to produce materials with a twist of 60^∘. Defect-limited mobilities of these materials reach 0.2 cm² V⁻¹ s⁻¹, but the potential defect-free mobility could be up to 10 cm² V⁻¹ s⁻¹.

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.

A systematic analysis of a series of donor–acceptor organic blends shows that in solar cells based on low-bandgap non-fullerene acceptors an ionization energy offset of about 0.5 eV is required to ensure efficient charge separation.

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.

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.

‘Archaeogenetic analysis of black rat remains reveals that this species was introduced into temperate Europe twice, in the Roman and medieval periods. This population turnover was likely associated with multiple historical and environmental factors.’

It is shown that Ohmic contacts for the injection of hole carriers into organic semiconductors with high ionization energy can be formed by adding ultrathin interlayers with higher ionization energy.

The authors summarize the data produced by phase III of the Encyclopedia of DNA Elements (ENCODE) project, a resource for better understanding of the human and mouse genomes.

Enzymes of central metabolism tend to assemble into transient supramolecular complexes. Here, the authors stoichiometrically perturbed the supramolecular complex of TCA cycle enzymes in B. subtilis and propose that MDH-ICD clustering causes 2-oxoglutartae sequestration by reducing its diffusion rate, a mechanism that has evolved to regulate flux through the carbon-nitrogen metabolic branch-point.

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.

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.

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.

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.

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.

Donald Trump made numerous promises during his presidential campaign that could affect scientists and science policy. Will they be implemented once he is president?

High-harmonic generation has so far been driven only by classical light. Now, its driving by a bright squeezed vacuum—a quantum state of light—has been observed and shown to be more efficient than using classical light.

The photosynthetic capacity of forest ecosystems is an important variable in the global carbon cycle. Here, it is shown that older, more diverse forests have less fluctuation between years in photosynthetic capacity.

In addition to affecting individual species, climate change can modify species interactions. Coupling simulation models with networks between plants and animal pollinators and seed dispersers, Schleuninget al. show that animal persistence under climate change depends more strongly on plant persistence than vice versa.

Polycyclic aromatic hydrocarbons such as [4]helicenes are important interstellar molecules. Here, the authors show their evolution of chiral clusters upon aggregation through coincidence spectroscopy and quantum chemical calculations.

Crack formation typically results in random patterns and material failure. Inspired by plant phototropism, the authors use plasmonic absorbers to control crack propagation in colloidal films with light, showcasing a robust, programmable self-assembly process.

This study presents the assembly and analysis of the genome sequence of a female domestic Duroc pig and a comparison with the genomes of wild and domestic pigs from Europe and Asia; the results shed light on the evolutionary relationship between European and Asian wild boars.

Micron and submicron-sized magnetic platelets in a vortex configuration may be useful in micromagnetics and spintronics applications. Kammereret al. show that a fast unidirectional vortex core reversal process occurs when azimuthal spin wave modes are excited at GHz frequency.

Genome-wide data for 763 individuals from inner Eurasia reveal 3 admixture clines in present-day populations that mirror geography, illuminating the historic spread and mixture of peoples across the Eurasian steppe, taiga and tundra.

Resistance to first line treatment is a major hurdle in cancer treatment, that can be overcome with drug combinations. Here, the authors provide a large drug combination screen across cancer cell lines to benchmark crowdsourced methods and to computationally predict drug synergies.

Pertussis immunisation for pregnant women has been introduced to protect newborns, but immunological evidence suggests that this lessens subsequent infant immune response to vaccination. Here, the authors assess the epidemiological impacts of both consequences of maternal immunisation on infant infection.

Multistage crystallization pathways involving nanoscopic precursors or intermediates have been proposed for various systems. Here, the authors find compelling evidence that nanoscopic species participate in the crystallization of glutamic acid monohydrate, extending this non-classical growth mechanism to organic crystals.