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PMCE: efficient inference of expressive models of cancer evolution with high prognostic power MotivationDriver (epi)genomic alterations underlie the positive selection of cancer subpopulations, which promotes drug resistance and relapse. Even though substantial heterogeneity is witnessed in most cancer types, mutation ... | bioinformatics |
Convergent evolution of primate testis transcriptomes reflects mating strategy In independent mammalian lineages where females mate with multiple males (multi-male mating strategies), males have evolved larger testicles relative to those lineages where females mate with fewer males (single-male mating strategies). Here... | evolutionary biology |
A max-margin model for predicting residue-base contacts in protein-RNA interactions Protein-RNA interactions (PRIs) are essential for many biological processes, so understanding aspects of the sequences and structures involved in PRIs is important for unraveling such processes. Because of the expensive and time-consumi... | bioinformatics |
Engineered acetoacetate-inducible whole-cell biosensors based on the AtoSC two-component system Whole-cell biosensors hold potential in a variety of industrial, medical and environmental applications. These biosensors can be constructed through the repurposing of bacterial sensing mechanisms, including the common two-c... | synthetic biology |
Association of NQO1 C609T (Pro187Ser) with risk of Oral Submucous Fibrosis in Eastern Indian population Oral submucous fibrosis (OSF) is a debilitating disease mainly attributed to chewing areca nut with a 7.4-13% malignant transformation rate. Present study explores the role of NADPH quinone oxidoreductase 1 (NQO1) C6... | genetics |
Fast gene set enrichment analysis Gene set enrichment analysis (GSEA) is an ubiquitously used tool for evaluating pathway enrichment in transcriptional data. Typical experimental design consists in comparing two conditions with several replicates using a differential gene expression test followed by preranked GSEA perf... | bioinformatics |
Immunoecology of species with alternative reproductive tactics and strategies Alternative reproductive tactics and strategies (ARTS) refer to polymorphic reproductive behaviours in which in addition to the usual two sexes, there are one or more alternative morphs, usually male, that have evolved the ability to circumve... | evolutionary biology |
Frameshifts and wild-type protein sequences are always highly similar because the genetic code and genomes were optimized for frameshift tolerance Frameshift protein sequences encoded by alternative reading frames of coding genes have been considered meaningless, and frameshift mutations have been considered of little ... | genetics |
Estimating the timing of multiple admixture events using 3-locus Linkage Disequilibrium Estimating admixture histories is crucial for understanding the genetic diversity we see in present-day populations. Allele frequency or phylogeny-based methods are excellent for inferring the existence of admixture or its proportio... | bioinformatics |
Revisiting the effect of red on competition in humans Bright red coloration is a signal of male competitive ability in animal species across a range of taxa, including non-human primates. Does the effect of red on competition extend to humans? A landmark study in evolutionary psychology established such an effect throu... | evolutionary biology |
Resolving the Functional Significance of BRCA1 RING Domain Missense Substitutions Part 1Development and calibration of suitably accurate functional assays for BRCA1 RING domain and BRCT domain missense substitutions could dramatically accelerate clinical classification of rare missense substitutions observed in that ge... | genetics |
Sustained software development, not number of citations or journal choice, is indicative of accurate bioinformatic software BackgroundComputational biology provides widely used and powerful software tools for testing and making inferences about biological data. In the face of rapidly increasing volumes of data, heurist... | bioinformatics |
Correcting Chimeric Crosstalk in Single Cell RNA-seq Experiments As part of the process of preparing sequencing libraries that include unique molecular identifiers (UMIs) such as many single cell RNA-seq (scRNA-seq) libraries, a diverse template must be amplified. During amplification, spurious chimeric molecules can b... | bioinformatics |
The Arabidopsis Framework Model version 2 predicts the organism-level effects of circadian clock gene mis-regulation Predicting a multicellular organisms phenotype quantitatively from its genotype is challenging, as genetic effects must propagate across scales. Circadian clocks are intracellular regulators that control... | plant biology |
Aperiodic neural activity is a better predictor of schizophrenia than neural oscillations Diagnosis and symptom severity in schizophrenia is associated with irregularities across neural oscillatory frequency bands, including theta, alpha, beta, and gamma. However, electroencephalographic signals consist of both periodi... | neuroscience |
Population Temporal Structure Supplements The Rate Code During Sensorimotor Transformations Sensorimotor transformations are mediated by premotor brain networks where individual neurons represent sensory, cognitive, and movement-related information. Such multiplexing poses a conundrum - how does a decoder know precisel... | neuroscience |
Sexual dimorphism and plasticity in wing shape in three Diptera The ability of powered flight in insects facilitated their great evolutionary success allowing them to occupy various ecological niches. Beyond this primary task, wings are often involved in various premating behaviors, such as the generation of courtship ... | zoology |
Laser-free super-resolution microscopy We report that high-density single-molecule super-resolution microscopy can be achieved with a conventional epifluorescence microscope setup and a Mercury arc lamp. The configuration termed as laser-free super-resolution microscopy (LFSM), is an extension of single molecule locali... | biophysics |
The Effects of Central Nervous System Stimulants on Drosophila melanogaster Reproduction Stimulant drugs are used everyday by people around the world. The effect stimulants have on developing human fetuses is widely unknown. The fruit fly Drosophila melanogaster has become a valuable system to model the complex effects... | developmental biology |
Proteins with prion-like domains can form viscoelastic condensates that enable membrane remodeling and endocytosis Membrane invagination and vesicle formation are key steps in endocytosis and cellular trafficking. Here, we show that endocytic coat proteins with prion-like domains (PLDs) form hemispherical puncta in the... | cell biology |
Intestine-to-neuronal signaling alters risk-taking behaviors in food-deprived Caenorhabditis elegans Animals integrate changes in external and internal environments to generate behavior. While neural circuits detecting external cues have been mapped, less is known about how internal states like hunger are integrated in... | neuroscience |
Distinct C4 Sub-Types and C3 Bundle Sheath Isolation In The Paniceae Grasses In C4 plants, the enzymatic machinery underpinning photosynthesis can vary, with, for example, three distinct C4 acid decarboxylases being used to release CO2 in the vicinity of RuBisCO. For decades, these decarboxylases have been used to clas... | plant biology |
The effects of an 8-week mindful eating intervention on anticipatory reward responses in striatum and midbrain Obesity is a highly prevalent disease, usually resulting from chronic overeating. Accumulating evidence suggests that increased neural responses during the anticipation of high-calorie food play an important r... | neuroscience |
Bromodomains regulate dynamic targeting of the PBAF chromatin remodeling complex to chromatin hubs Transcriptional bursting involves genes rapidly switching between active and inactive states. Chromatin remodelers actively target arrays of acetylated nucleosomes at select enhancers and promoters to facilitate or shut d... | cell biology |
cytoNet: Spatiotemporal Network Analysis of Cell Communities We introduce cytoNet, a cloud-based tool to characterize cell populations from microscopy images. cytoNet quantifies spatial topology and functional relationships in cell communities using principles of network science. Capturing multicellular dynamics throug... | bioengineering |
Plant genetic effects on microbial hubs impact fitness across field trials Although complex interactions between hosts and microbial associates are increasingly well documented, we still know little about how and why hosts shape microbial communities in nature. In addition, host genetic effects on microbial communities... | plant biology |
MARS-Net: Deep learning-based segmentation pipeline for profiling cellular morphodynamics from multiple types of live cell microscopy Quantitative studies of cellular morphodynamics rely on extracting leading-edge velocity time-series based on accurate cell segmentation from live cell imaging. However, live cell imagin... | bioinformatics |
Histone deacetylase inhibition reduces deleterious cytokine release induced by ingenol stimulation IntroductionLatency reversal agents (LRAs), such as protein kinase C (PKC) agonists, constitute a promising strategy for exposing and eliminating the HIV-1 latent reservoir. PKC agonists activate NF-{kappa}B and, in turn,... | microbiology |
Plasma amyloid β levels are driven by genetic variants near APOE, BACE1, APP, PSEN2: A genome-wide association study in over 12,000 non-demented participants INTRODUCTIONThere is increasing interest in plasma A{beta} as an endophenotype and biomarker of Alzheimers disease (AD). Identifying the genetic determinants of p... | genetics |
Measuring nonapoptotic caspase activity with a transgenic reporter in mice The protease caspase-3 is a key mediator of apoptotic programmed cell death. But weak or transient caspase activity can contribute to neuronal differentiation, axonal pathfinding, and synaptic long-term depression. Despite the importance of subl... | neuroscience |
Improved management facilitates return of an iconic fish species Species declines and losses of biota are often associated with shifting baselines in perceived historical abundances, and/or neglect or abandonment of recovery actions aimed at ecological restoration. Such declines are frequently accompanied by contractio... | ecology |
Early urinary candidate biomarkers and clinical outcomes of intervention in a rat model of experimental autoimmune encephalomyelitis Multiple sclerosis is a chronic autoimmune demyelinating disease of the central nervous system and is difficult to diagnose in early stages. Without homeostatic control, urine was reporte... | biochemistry |
Majority of choice-related variability in perceptual decisions is present in early sensory cortex While performing challenging perceptual tasks such as detecting a barely visible target, our perceptual reports vary across presentations of identical stimuli. This perceptual variability is presumably caused by neural var... | neuroscience |
Removing unwanted variation between samples in Hi-C experiments Hi-C data is commonly normalized using single sample processing methods, with focus on comparisons between regions within a given contact map. Here, we aim to compare contact maps across different samples. We demonstrate that unwanted variation, of likely ... | genomics |
A bacterial GW-effector directly targets Arabidopsis Argonaute 1 to suppress PAMP-triggered immunity and cause disease Pseudomonas syringae (P. syringae) type-III effectors were previously found to suppress the Arabidopsis microRNA (miRNA) pathway through unknown mechanisms. Here, we first show that the P. syringae Hop... | plant biology |
Differential and defective expression of Koala Retrovirus indicate complexity of host and virus evolution Koala retrovirus (KoRV) is unique amongst endogenous (inherited) retroviruses in that its incorporation to the host genome is still active, providing an opportunity to study what drives this fundamental process in ... | microbiology |
Experimental evidence of non-classical brain functions Exploring unknown quantum systems is an experimental challenge. Recent proposals exploring quantum gravity have suggested circumventing this problem by considering the unknown system as a mediator between two known systems. If such a mediation can locally generate ... | bioinformatics |
A GenoChemetic strategy for derivatization of the violacein natural product scaffold Natural products and their analogues are often challenging to synthesise due to their complex scaffolds and embedded functional groups. Solely relying on engineering the biosynthesis of natural products may lead to limited compound di... | synthetic biology |
Proof of concept continuous event logging in living cells Cells must detect and respond to molecular events such as the presence or absence of specific small molecules. To accomplish this, cells have evolved methods to measure the presence and concentration of these small molecules in their environment and enact change... | synthetic biology |
Modeling Dynamic Transcriptional Circuits with CRISPRi Targeted transcriptional repression with catalytically inactive Cas9 (CRISPRi) promises to reproduce the functions of traditional synthetic transcriptional circuits, but with better orthogonality, programmability, and extensibility. However, CRISPRi lacks obvious c... | synthetic biology |
Scanning along a compressed timeline of the future Several authors have suggested a deep symmetry between the psychological processes that underlie our ability to remember the past and make predictions about the future. The judgment of recency (JOR) task measures temporal order judgments for the past by presenting pair... | animal behavior and cognition |
Single-cell characterization of step-wise acquisition of carboplatin resistance in ovarian cancer Acquired resistance to carboplatin is a major obstacle to the cure of ovarian cancer, but its molecular underpinnings are still poorly understood and often inconsistent between in vitro modeling studies. Using sequential t... | cancer biology |
System drift and speciation Even if a species phenotype does not change over evolutionary time, the underlying mechanism may change, as distinct molecular pathways can realize identical phenotypes. Here we use linear system theory to explore the consequences of this idea, describing how a gene network underlying a cons... | evolutionary biology |
The effectiveness of glass beads for plating cell cultures Cell plating, the spreading out of a liquid suspension of cells on a surface followed by colony growth, is a common laboratory procedure in microbiology. Despite this, the exact impact of its parameters on colony growth has not been extensively studied. A commo... | biophysics |
Iron oxidation by a fused cytochrome-porin common to diverse iron-oxidizing bacteria Iron (Fe) oxidation is one of Earths major biogeochemical processes, key to weathering, soil formation, water quality, and corrosion. However, our understanding of microbial contribution is limited by incomplete knowledge of microbial ... | microbiology |
Novel Integrative Modeling of Molecules and Morphology Pinpoints Caninae Evolution across Timescales Evolutionary models account for either population- or species-level processes, but usually not both. We introduce a new model, the FBD-MSC, which makes it possible for the first time to integrate both the genealogical a... | evolutionary biology |
Dynamic Flux Balance Analysis Models in SBML Computational models in systems biology and systems medicine are typically simulated using a single formalism such as ordinary differential equations (ODE). However, more complex models require the coupling of multiple formalisms since different biological phenomena are bett... | bioinformatics |
Seidr: Efficient Calculation of Robust Ensemble Gene Networks Gene regulatory and gene co-expression networks are powerful research tools for identifying biological signal within high-dimensional gene expression data. In recent years, research has focused on addressing shortcomings of these techniques with regard to th... | bioinformatics |
High-throughput microcolony growth analysis from suboptimal low-magnification micrographs New technological advances have enabled high-throughput phenotyping at the single-cell level, yet analyzing the large amount of data generated by high throughput phenotyping experiments automatically and accurately is a considerab... | bioinformatics |
Visual and auditory brain areas share a representational structure that supports emotion perception Emotionally expressive music and dance occur together across the world. This may be because features shared across the senses are represented the same way even in different sensory brain areas, putting music and movement... | neuroscience |
Bayesian model comparison for rare variant association studies Whole genome sequencing studies applied to large populations or biobanks with extensive phenotyping raise new analytic challenges. The need to consider many variants at a locus or group of genes simultaneously and the potential to study many correlated phen... | genetics |
Nanoscale colocalization of NK cell activating and inhibitory receptors controls signal integration NK cell responses depend on the balance of signals from inhibitory and activating receptors. However, how the integration of antagonistic signals occurs upon NK cell-target cell interaction is not fully understood. Here,... | immunology |
Genie: An interactive real-time simulation for teaching genetic drift Neutral evolution is a fundamental concept in evolutionary biology but teaching this and other non-adaptive concepts is specially challenging. Here we present Genie, a browser-based educational tool that facilitates demonstration of concepts such as ... | scientific communication and education |
The effect of mutational robustness on the evolvability of multicellular organisms Canalization involves mutational robustness, the lack of phenotypic change as a result of genetic mutations. Given the large divergence in phenotype across species, understanding the relationship between high robustness and evolvability ... | evolutionary biology |
The importance of semantic network brain regions in integrating prior knowledge with an ongoing dialogue To understand a dialogue we need to know the specific topics that are being discussed. This enables us to integrate our knowledge of what was said previously, in order to interpret the current dialogue. Here, we sel... | neuroscience |
Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis Majority of the genes expressed during spermatogenesis are autosomal. Mice with different deletions of Yq show sub-fertility, sterility and sperm abnormalities. The connection between Yq deletion and autosomal gene regulation is ... | genomics |
Effects of adaptive harvesting on fishing down processes and resilience changes in predator-prey systems Many world fisheries display a declining mean trophic level of catches. This "fishing down the food web" is often attributed to reduced densities of high-trophic-level species. We show here that the fishing down pat... | ecology |
Does deterministic coexistence theory matter in a finite world? Contemporary studies of species coexistence are underpinned by deterministic models that assume that competing species have continuous (i.e. non-integer) densities, live in infinitely large landscapes, and coexist over infinite time horizons. By contrast, ... | ecology |
Splicing motifs are organized within global structural scaffold of a pre-mRNA The specific recognition of splice signals at or near exon-intron junctions is not explained by their weak conservation and instead is postulated to require a multitude of features embedded in the pre-mRNA strand. We explored the possibility ... | biochemistry |
Manipulation of the unfolded protein response: a pharmacological strategy against coronavirus infection Coronavirus infection induces the unfolded protein response (UPR), a cellular signalling pathway composed of three branches, triggered by unfolded proteins in the endoplasmic reticulum (ER) due to high ER load. We ha... | microbiology |
Dissecting indirect genetic effects from peers in laboratory mice The phenotype of one individual can be affected not only by the individuals own genotypes (direct genetic effects, DGE) but also by genotypes of interacting partners (indirect genetic effects, IGE). IGE have been detected using polygenic models in multip... | genetics |
Spatial distribution of private gene mutations in clear cell renal cell carcinoma Intra-tumour heterogeneity is the molecular hallmark of renal cancer, and the molecular tumour composition determines the treatment outcome of renal cancer patients. In renal cancer tumourigenesis, in general, different tumour clones evol... | cancer biology |
DsbA is a redox-switchable mechanical chaperone DsbA is a ubiquitous bacterial oxidoreductase that associates with substrates during and after translocation, yet its involvement in protein folding and translocation remains an open question. Here we demonstrate a redox-controlled chaperone activity of DsbA, on both cyst... | biophysics |
A constraints-based theory of senescence: imbalance of epigenetic and non-epigenetic information in histone crosstalk Cellular aging has been progressively elucidated by science. However, the fundamental cause of senescence--i.e., why organisms age at the multicellular-individual level--remains unclear. A recent theory... | developmental biology |
Cargo-Loading of Misfolded Proteins into Extracellular Vesicles: The CSPα-EV Export Pathway Extracellular vesicles (EVs) are secreted vesicles of diverse size and cargo that are implicated in the cell-to-cell transmission of disease-causing-proteins in several neurodegenerative diseases. Mutant huntingtin, the disease-... | neuroscience |
Structurally Constrained Effective Brain Connectivity The relationship between structure and function is of interest in many research fields involving the study of complex biological processes. In neuroscience in particular, the fusion of structural and functional data can help understanding the underlying principles o... | neuroscience |
Characterization of Animal Movement Patterns using Information Theory: a Primer Understanding the movement patterns of animals across different spatio-temporal scales, conditions, habitats and contexts is becoming increasingly important for addressing a series of questions in animal behaviour studies, such as mapping m... | ecology |
Sperm morphology differences associated with pig fertility Artificial insemination is routine in commercial pig breeding, and as such, the use of high-quality semen samples is imperative. Here, we have developed a novel, semi-automated, software-based approach to assess pig sperm nucleus morphology in greater detail th... | developmental biology |
Direct programming of human mammary self-organised organoids by miR-106a-3p Organoids development relies on the self-organizing properties of adult stem cells to create structures which recapitulate the architecture, functionality, and genetic signature observed in original tissues. Little is known about of the exact n... | cell biology |
Polymer brush bilayers at thermal equilibrium: A density functional theory approach By means of the density functional theory (DFT) framework, the longstanding problem of the polymer brush bilayers at thermal equilibrium is studied. The calculated density profiles reveal that the brushes balance compression and interpe... | biophysics |
Empirical single-cell tracking and cell-fate simulation reveal dual roles of p53 in tumor suppression The tumor suppressor p53 regulates various stress responses via increasing its cellular levels. The lowest p53 levels occur in unstressed cells; however, the functions of these low levels remains unclear. To investigat... | cell biology |
Identification and design of vinyl sulfone inhibitors against Cryptopain1-a cysteine protease from cryptosporidiosis-causing Cryptosporidium parvum Cryptosporidiosis, a disease marked by diarrhea in adults and stunted growth in children, is associated with the unicellular protozoan pathogen Cryptosporidium; often the s... | bioinformatics |
Spatial RNA sequencing identifies robust markers of vulnerable and resistant human midbrain dopamine neurons and their expression in Parkinson's Disease Defining transcriptional profiles of substantia nigra pars compacta (SNc) and ventral tegmental area (VTA) dopamine neurons is critical to understanding their differen... | neuroscience |
Dissociating Language and Thought in Human Reasoning What is the relationship between natural language and complex thought? In the context of complex reasoning, there are two main views. Under the first, language is central to the syntax-like combinatorial operations necessary for complex reasoning. Under the second, t... | neuroscience |
Broad geographic sampling reveals predictable, pervasive, and strong seasonal adaptation in Drosophila To advance our understanding of adaptation to temporally varying selection pressures, we identified signatures of seasonal adaptation occurring in parallel among Drosophila melanogaster populations. Specifically, we e... | evolutionary biology |
3D Reconstruction of Bird Flight Using a Single Video Camera Video cameras are finding increasing use in the study and analysis of bird flight over short ranges. However, reconstruction of flight trajectories in three dimensions typically requires the use of multiple cameras and elaborate calibration procedures. We pre... | animal behavior and cognition |
The interspecific fungal hybrid Verticillium longisporum displays sub-genome-specific gene expression Hybridization is an important evolutionary mechanism that can enable organisms to adapt to environmental challenges. It has previously been shown that the fungal allodiploid species Verticillium longisporum, causal age... | microbiology |
Ecological Network assembly: how the regional meta web influence local food webs O_LILocal food webs result from a sequence of colonisations and extinctions by species from the regional pool or metaweb, i.e., the assembly process. Assembly is theorised to be a selective process: whether or not certain species or networ... | ecology |
Network Reconstruction from Perturbation Time Course Data Networks underlie much of biology from subcellular to ecological scales. Yet, understanding what experimental data are needed and how to use them for unambiguously identifying the structure of even small networks remains a broad challenge. Here, we integrate a d... | systems biology |
Rapid adaptation of endocytosis, exocytosis and eisosomes after an acute increase in membrane tension in yeast cells During clathrin-mediated endocytosis in eukaryotes, actin assembly is required to overcome large membrane tension and turgor pressure. However, the molecular mechanisms by which the actin machinery adapt... | cell biology |
Evolutionary forecasting of phenotypic and genetic outcomes of experimental evolution in Pseudomonas protegens Experimental evolution with microbes is often highly repeatable under identical conditions, suggesting the possibility to predict short-term evolution. However, it is not clear to what degree evolutionary fore... | evolutionary biology |
KChIP4a selectively controls mesolimbic dopamine neuron inhibitory integration and learning from negative prediction errors Midbrain dopamine (DA) neurons are essential for multiple behaviors. DA neurons that project to different regions also have unique biophysical properties, and it is thought that this diversity ref... | neuroscience |
A pragmatic approach to make theoretical syntheses in ecology Theoretical syntheses have the role of describing and guiding knowledge generation, and are usually done by enunciating the conceptual bases that guide research in a given field. In fields that develop axiomatically, the conceptual basis can be easily identi... | ecology |
Microbial adaptation to venom is common in snakes and spiders Animal venoms are considered sterile sources of antimicrobial compounds with strong membrane disrupting activity against multi-drug resistant bacteria. However, bite wound infections are common in developing nations. Investigating the oral and venom microbio... | microbiology |
The Goldilocks Effect: Female geladas in mid-sized groups have higher fitness The cost-benefit ratio of group-living is thought to vary with group size: individuals in "optimally-sized" groups should have higher fitness than individuals in groups that are either too large or too small. However, the relationship between... | evolutionary biology |
Joint inference of species histories and gene flow When populations become isolated, members of these populations can diverge genetically over time. This leads to genetic differences between these populations that increase over time if the isolation persists. This process can be counteracted by gene flow, i.e. when gen... | evolutionary biology |
5' Modifications Improve Potency and Efficacy of DNA Donors for Precision Genome Editing Nuclease-directed genome editing is a powerful tool for investigating physiology and has great promise as a therapeutic approach to correct mutations that cause disease. In its most precise form, genome editing can use cellular hom... | molecular biology |
Structure-aware M. tuberculosis functional annotation uncloaks resistance, metabolic, and virulence genes Accurate and timely functional genome annotation is essential for translating basic pathogen research into clinically impactful advances. Here, through literature curation and structure-function inference, we syste... | genomics |
Distracting Linguistic Information Impairs Neural Tracking of Attended Speech Listening to speech is difficult in noisy environments, and is even harder when the interfering noise consists of intelligible speech as compared to unintelligible sounds. This suggests that the competing linguistic information interferes wit... | neuroscience |
Extracellular histones, a new class of inhibitory molecules of CNS axonal regeneration Axonal regeneration in the mature CNS is limited by extracellular inhibitory factors. Triple knockout mice lacking the major myelin-associated inhibitors do not display spontaneous regeneration after injury, indicating the presence o... | neuroscience |
Dispensing a synthetic green leaf volatile to two plant species in a common garden differentially alters physiological responses and herbivory Herbivore-induced plant volatile (HIPV)-mediated eavesdropping by plants is a well-documented, inducible phenomenon that has practical agronomic applications for enhancing plant... | ecology |
The taxonomic and functional biogeographies of phytoplankton and zooplankton communities across boreal lakes AO_SCPLOWBSTRACTC_SCPLOWStrong trophic interactions link primary producers (phytoplankton) and consumers (zooplankton) in lakes. However, the influence of such interactions on the biogeographical distribution of... | ecology |
Predicting subclinical psychotic-like experiences on a continuum using machine learning Previous studies applying machine learning methods to psychosis have primarily been concerned with the binary classification of chronic schizophrenia patients and healthy controls. The aim of this study was to use electroencephalogr... | neuroscience |
Individuals with ventromedial frontal damage have more unstable but still fundamentally transitive preferences The ventromedial frontal lobes (VMF) are important for decision-making, but the precise causal role of the VMF in the decision process has not yet fully been established. Previous studies have suggested that i... | neuroscience |
De Novo Mutational Signature Discovery in Tumor Genomes using SparseSignatures Cancer is the result of mutagenic processes that can be inferred from tumor genomes by analyzing rate spectra of point mutations, or "mutational signatures". Here we present SparseSignatures, a novel framework to extract signatures from soma... | bioinformatics |
GranatumX: A community engaging, modularized and flexible software environment for single-cell analysis We present GranatumX, a next-generation software environment for single-cell data analysis. GranatumX is inspired by the interactive web tool Granatum. It enables biologists to access the latest single-cell bioinform... | bioinformatics |
High-quality SNPs from genic regions highlight introgression patterns among European white oaks (Quercus petraea and Q. robur). The Src homology-2 domain containing phosphatase SHP2 is a critical regulator of signal transduction, being implicated in cell growth and differentiation. Activating mutations cause developmen... | evolutionary biology |
Eye movements during text reading align with the rate of speech production Across languages, the speech signal is characterized by a predominant modulation of the amplitude spectrum between about 4.3-5.5Hz, reflecting the production and processing of linguistic information chunks (syllables, words) every [~]200ms. Inte... | neuroscience |
Basal ganglia and cortical control of thalamic rebound spikes Movement-related decreases in firing rate have been observed in basal ganglia output neurons. They may transmit motor signals to the thalamus, but the effect of these firing rate decreases on downstream neurons in the motor thalamus is not known. One possibi... | neuroscience |
Reduction in CD11c+ microglia correlates with clinical progression in chronic experimental autoimmune demyelination Multiple sclerosis (MS) is a chronic autoimmune demyelinating disease with high variability of clinical symptoms. In most cases MS appears as a relapsing-remitting disease course that at a later stage tra... | neuroscience |
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