Communications Biology

Article	Citations
DeepEMhancer: a deep learning solution for cryo-EM volume post-processing	586
A comprehensive review on plasmonic-based biosensors used in viral diagnostics	271
Single-cell and spatial transcriptomics enables probabilistic inference of cell type topography	260
Second-generation lung-on-a-chip with an array of stretchable alveoli made with a biological membrane	164
Ionization and structural properties of mRNA lipid nanoparticles influence expression in intramuscular and intravascular administration	157
Activation of mitochondrial TUFM ameliorates metabolic dysregulation through coordinating autophagy induction	157
Identification of 3-chymotrypsin like protease (3CLPro) inhibitors as potential anti-SARS-CoV-2 agents	153
Mapping the immune environment in clear cell renal carcinoma by single-cell genomics	152
Role of sleep deprivation in immune-related disease risk and outcomes	136
Towards organoid culture without Matrigel	136
SARS-CoV-2 infection induces a pro-inflammatory cytokine response through cGAS-STING and NF-κB	130
The antimicrobial potential of cannabidiol	122
Amplification-free RNA detection with CRISPR–Cas13	121
Identification of SARS-CoV-2 inhibitors targeting Mpro and PLpro using in-cell-protease assay	120
Deep ocean metagenomes provide insight into the metabolic architecture of bathypelagic microbial communities	110
NetTCR-2.0 enables accurate prediction of TCR-peptide binding by using paired TCRα and β sequence data	109
Human ACE2 receptor polymorphisms and altered susceptibility to SARS-CoV-2	108
Analysis of SARS-CoV-2 mutations in the United States suggests presence of four substrains and novel variants	105
Sex differences in SARS-CoV-2 infection rates and the potential link to prostate cancer	104
Tetracycline-inactivating enzymes from environmental, human commensal, and pathogenic bacteria cause broad-spectrum tetracycline resistance	99
Evolution of antibiotic resistance at low antibiotic concentrations including selection below the minimal selective concentration	96
Climate-change-driven growth decline of European beech forests	96
Comparative ACE2 variation and primate COVID-19 risk	96
Fatty-acid-induced FABP5/HIF-1 reprograms lipid metabolism and enhances the proliferation of liver cancer cells	95
Brains and algorithms partially converge in natural language processing	95

Cells grown in three-dimensional spheroids mirror in vivo metabolic response of epithelial cells	93
Temporal sequences of brain activity at rest are constrained by white matter structure and modulated by cognitive demands	90
Newly discovered Synechococcus sp. PCC 11901 is a robust cyanobacterial strain for high biomass production	90
The genetic architecture of appendicular lean mass characterized by association analysis in the UK Biobank study	90
Temporal association between human upper respiratory and gut bacterial microbiomes during the course of COVID-19 in adults	89
Genomic and transcriptomic variation defines the chromosome-scale assembly of Haemonchus contortus, a model gastrointestinal worm	88
Telomere-to-telomere gapless chromosomes of banana using nanopore sequencing	86
Molecular basis for the disruption of Keap1–Nrf2 interaction via Hinge & Latch mechanism	86
Human ACE2 peptide-mimics block SARS-CoV-2 pulmonary cells infection	85
SARS-CoV-2 specific antibody and neutralization assays reveal the wide range of the humoral immune response to virus	85
Large-scale integration of single-cell transcriptomic data captures transitional progenitor states in mouse skeletal muscle regeneration	85
Simple and effective serum-free medium for sustained expansion of bovine satellite cells for cell cultured meat	85
From whole-mount to single-cell spatial assessment of gene expression in 3D	84
Improved designs for pET expression plasmids increase protein production yield in Escherichia coli	84
Inhibition of the CCL2 receptor, CCR2, enhances tumor response to immune checkpoint therapy	84
Robust estimation of bacterial cell count from optical density	82
Met-Flow, a strategy for single-cell metabolic analysis highlights dynamic changes in immune subpopulations	81
PD-1 derived CA-170 is an oral immune checkpoint inhibitor that exhibits preclinical anti-tumor efficacy	80
Single-cell analysis supports a luminal-neuroendocrine transdifferentiation in human prostate cancer	80
Prioritization of candidate causal genes for asthma in susceptibility loci derived from UK Biobank	80
Integration of substrate- and flow-derived stresses in endothelial cell mechanobiology	79
The brain and its time: intrinsic neural timescales are key for input processing	78
Accelerating antibiotic discovery through artificial intelligence	76
ExoSTING, an extracellular vesicle loaded with STING agonists, promotes tumor immune surveillance	75
A genome-wide meta-analysis yields 46 new loci associating with biomarkers of iron homeostasis	74
Cryo-EM structure of type 1 IP3R channel in a lipid bilayer	74
Climate change threatens Chinook salmon throughout their life cycle	72
A framework for identifying the recent origins of mobile antibiotic resistance genes	71
Tipiracil binds to uridine site and inhibits Nsp15 endoribonuclease NendoU from SARS-CoV-2	70
When dormancy fuels tumour relapse	69
Multiple impacts of microplastics can threaten marine habitat-forming species	69
Temporal hierarchy of intrinsic neural timescales converges with spatial core-periphery organization	69
A haplotype-led approach to increase the precision of wheat breeding	69
Type I toxin-antitoxin systems contribute to the maintenance of mobile genetic elements in Clostridioides difficile	68
Cyanobacterial blooms contribute to the diversity of antibiotic-resistance genes in aquatic ecosystems	68
Exploring the evidence for epigenetic regulation of environmental influences on child health across generations	67
High frequency acoustic cell stimulation promotes exosome generation regulated by a calcium-dependent mechanism	67
Features and applications of haplotypes in crop breeding	66
Microglial metabolism is a pivotal factor in sexual dimorphism in Alzheimer’s disease	65
IFN signaling and neutrophil degranulation transcriptional signatures are induced during SARS-CoV-2 infection	65
Design and optimisation of dendrimer-conjugated Bcl-2/xL inhibitor, AZD0466, with improved therapeutic index for cancer therapy	64
A combined approach for single-cell mRNA and intracellular protein expression analysis	64
Sand flies: Basic information on the vectors of leishmaniasis and their interactions with Leishmania parasites	61
Optogenetic therapy: high spatiotemporal resolution and pattern discrimination compatible with vision restoration in non-human primates	61
Gut microbiome diversity is an independent predictor of survival in cervical cancer patients receiving chemoradiation	61
Gut mycobiota alterations in patients with COVID-19 and H1N1 infections and their associations with clinical features	60
A normative modelling approach reveals age-atypical cortical thickness in a subgroup of males with autism spectrum disorder	60
Detritivore conversion of litter into faeces accelerates organic matter turnover	60
Wnt signaling in lung development, regeneration, and disease progression	60
The multiple mechanisms of MCL1 in the regulation of cell fate	60

Tumor microbiome contributes to an aggressive phenotype in the basal-like subtype of pancreatic cancer	60
Parameter tuning differentiates granule cell subtypes enriching transmission properties at the cerebellum input stage	60
The gut mycobiome of healthy mice is shaped by the environment and correlates with metabolic outcomes in response to diet	59
A time-dependent diffusion MRI signature of axon caliber variations and beading	58
Biomolecular condensates as arbiters of biochemical reactions inside the nucleus	58
A novel canine reference genome resolves genomic architecture and uncovers transcript complexity	58
Genome-resolved metagenomics suggests a mutualistic relationship between Mycoplasma and salmonid hosts	57
NEBULA is a fast negative binomial mixed model for differential or co-expression analysis of large-scale multi-subject single-cell data	56
β-amyloid and tau drive early Alzheimer’s disease decline while glucose hypometabolism drives late decline	56
High resolution DNA barcode library for European butterflies reveals continental patterns of mitochondrial genetic diversity	55
Bacterial diets differentially alter lifespan and healthspan trajectories in C. elegans	54
An algorithm to quantify intratumor heterogeneity based on alterations of gene expression profiles	54
Control of protein palmitoylation by regulating substrate recruitment to a zDHHC-protein acyltransferase	54
A spatial regime shift from predator to prey dominance in a large coastal ecosystem	53
Large-scale shift in the structure of a kelp forest ecosystem co-occurs with an epizootic and marine heatwave	53
Epigenetic landscape of pancreatic neuroendocrine tumours reveals distinct cells of origin and means of tumour progression	53
Full structural ensembles of intrinsically disordered proteins from unbiased molecular dynamics simulations	53
Omental macrophages secrete chemokine ligands that promote ovarian cancer colonization of the omentum via CCR1	53
ImmuneBuilder: Deep-Learning models for predicting the structures of immune proteins	52
Author Correction: Cycloalkane-modified amphiphilic polymers provide direct extraction of membrane proteins for CryoEM analysis	52
Surfactant-assisted one-pot sample preparation for label-free single-cell proteomics	52
Anion-exchange chromatography mass spectrometry provides extensive coverage of primary metabolic pathways revealing altered metabolism in IDH1 mutant cells	51
Tet2 at the interface between cancer and immunity	51
Global patterns in genomic diversity underpinning the evolution of insecticide resistance in the aphid crop pest Myzus persicae	51
Adaptive laboratory evolution enhances methanol tolerance and conversion in engineered Corynebacterium glutamicum	51
Metagenome-assembled genomes and gene catalog from the chicken gut microbiome aid in deciphering antibiotic resistomes	51
More than half of data deficient species predicted to be threatened by extinction	51
Biocompatible nucleus-targeted graphene quantum dots for selective killing of cancer cells via DNA damage	50
Genome editing in plants using CRISPR type I-D nuclease	49
Genome-wide analysis of DNA G-quadruplex motifs across 37 species provides insights into G4 evolution	49
Mash-based analyses of Escherichia coli genomes reveal 14 distinct phylogroups	49
Real-time synthesis of imagined speech processes from minimally invasive recordings of neural activity	49
A multi-ethnic meta-analysis identifies novel genes, including ACSL5, associated with amyotrophic lateral sclerosis	48
Deciphering tissue structure and function using spatial transcriptomics	48
Ten emerging SARS-CoV-2 spike variants exhibit variable infectivity, animal tropism, and antibody neutralization	48
Inside-out chicken enteroids with leukocyte component as a model to study host–pathogen interactions	48
Clinical evolution of ST11 carbapenem resistant and hypervirulent Klebsiella pneumoniae	48
Lactobacillus spp. attenuate antibiotic-induced immune and microbiota dysregulation in honey bees	48
DNA methylation reprogramming during seed development and its functional relevance in seed size/weight determination in chickpea	47
The structural basis of function and regulation of neuronal cotransporters NKCC1 and KCC2	47
Optimizing spectral quality with quantum dots to enhance crop yield in controlled environments	47
A large-scale genome-wide cross-trait analysis reveals shared genetic architecture between Alzheimer’s disease and gastrointestinal tract disorders	47
Comparative analysis of 1152 African-American and European-American men with prostate cancer identifies distinct genomic and immunological differences	47
A high-throughput Galectin-9 imaging assay for quantifying nanoparticle uptake, endosomal escape and functional RNA delivery	46
Co-delivery of resolvin D1 and antibiotics with nanovesicles to lungs resolves inflammation and clears bacteria in mice	46
Ancient Jomon genome sequence analysis sheds light on migration patterns of early East Asian populations	46
Integrative omics analysis of the termite gut system adaptation to Miscanthus diet identifies lignocellulose degradation enzymes	46
High-resolution cryo-EM structure of photosystem II reveals damage from high-dose electron beams	46
BMP-2 and VEGF-A modRNAs in collagen scaffold synergistically drive bone repair through osteogenic and angiogenic pathways	46
The kinetics of humoral response and its relationship with the disease severity in COVID-19	46
Mitochondrial stress-activated cGAS-STING pathway inhibits thermogenic program and contributes to overnutrition-induced obesity in mice	46
Decoding the transcriptome of calcified atherosclerotic plaque at single-cell resolution	45
Trodusquemine displaces protein misfolded oligomers from cell membranes and abrogates their cytotoxicity through a generic mechanism	45
Immunological considerations and challenges for regenerative cellular therapies	45
Wuschel2 enables highly efficient CRISPR/Cas-targeted genome editing during rapid de novo shoot regeneration in sorghum	45
Restoring indigenous names in taxonomy	45
The lexicon of antimicrobial peptides: a complete set of arginine and tryptophan sequences	45
The Rnf complex is a Na+ coupled respiratory enzyme in a fermenting bacterium, Thermotoga maritima	45
Prediction of 3D Cardiovascular hemodynamics before and after coronary artery bypass surgery via deep learning	45
Whole-genome sequence analysis unveils different origins of European and Asiatic mouflon and domestication-related genes in sheep	44
Climate and seasonality drive the richness and composition of tropical fungal endophytes at a landscape scale	44
SARS-CoV-2 Omicron variant is attenuated for replication in a polarized human lung epithelial cell model	44
Cell-autonomous immune gene expression is repressed in pulmonary neuroendocrine cells and small cell lung cancer	44
Liposomal nanotheranostics for multimode targeted in vivo bioimaging and near‐infrared light mediated cancer therapy	44
The cardiolipin-binding peptide elamipretide mitigates fragmentation of cristae networks following cardiac ischemia reperfusion in rats	43
Volatile organic compound patterns predict fungal trophic mode and lifestyle	43
Subtyping analysis reveals new variants and accelerated evolution of Clostridioides difficile toxin B	43
MYB repressors and MBW activation complex collaborate to fine-tune flower coloration in Freesia hybrida	43
DNA–protein crosslink proteases in genome stability	43
High-content fluorescence imaging with the metabolic flux assay reveals insights into mitochondrial properties and functions	43
Large genome-wide association study identifies three novel risk variants for restless legs syndrome	42
Molecular and phenotypic analysis of rodent models reveals conserved and species-specific modulators of human sarcopenia	42
Identification of a pathway for electron uptake in Shewanella oneidensis	42
Dynamic relationships between spontaneous and evoked electrophysiological activity	42
Secreted midbody remnants are a class of extracellular vesicles molecularly distinct from exosomes and microparticles	42
Fast automated detection of COVID-19 from medical images using convolutional neural networks	42
Passive eDNA collection enhances aquatic biodiversity analysis	42
The genome of pest Rhynchophorus ferrugineus reveals gene families important at the plant-beetle interface	42
Spatiotemporal identification of druggable binding sites using deep learning	42
Analysis of genetically independent phenotypes identifies shared genetic factors associated with chronic musculoskeletal pain conditions	41

The interplay between membrane topology and mechanical forces in regulating T cell receptor activity	41
Stony coral tissue loss disease decimated Caribbean coral populations and reshaped reef functionality	41
3D tumor spheroid microarray for high-throughput, high-content natural killer cell-mediated cytotoxicity	41
A single day of TGF-β1 exposure activates chondrogenic and hypertrophic differentiation pathways in bone marrow-derived stromal cells	41
A gene prioritization method based on a swine multi-omics knowledgebase and a deep learning model	41
Vector competence of Aedes albopictus populations for chikungunya virus is shaped by their demographic history	41
Bridgehead effect and multiple introductions shape the global invasion history of a termite	41
Reconstituted cell-free protein synthesis using in vitro transcribed tRNAs	41
Single-cell transcriptomics following ischemic injury identifies a role for B2M in cardiac repair	41
Menstrual flow as a non-invasive source of endometrial organoids	41
Wolfberry genomes and the evolution of Lycium (Solanaceae)	41
Predicting clinical resistance prevalence using sewage metagenomic data	40
Insights into the genomic evolution of insects from cricket genomes	40
Biohydrogen production beyond the Thauer limit by precision design of artificial microbial consortia	40
Loss of consciousness reduces the stability of brain hubs and the heterogeneity of brain dynamics	40
A generic approach to study the kinetics of liquid–liquid phase separation under near-native conditions	40
Cell response analysis in SARS-CoV-2 infected bronchial organoids	40
Structural definition of a pan-sarbecovirus neutralizing epitope on the spike S2 subunit	40
An alternative pathway for membrane protein biogenesis at the endoplasmic reticulum	40
The reliability and heritability of cortical folds and their genetic correlations across hemispheres	40
A modular two yeast species secretion system for the production and preparative application of unspecific peroxygenases	40
Highly efficient gene transfer in the mouse gut microbiota is enabled by the Incl2 conjugative plasmid TP114	39
A multi-ethnic genome-wide association study implicates collagen matrix integrity and cell differentiation pathways in keratoconus	39
Immunoreactive peptide maps of SARS-CoV-2	39
Pre-innervated tissue-engineered muscle promotes a pro-regenerative microenvironment following volumetric muscle loss	39
Droplet-based microfluidic platform for high-throughput screening of Streptomyces	39
Identifying behavioral structure from deep variational embeddings of animal motion	39
Adaptation by copy number variation increases insecticide resistance in the fall armyworm	39
Breakdown of supersaturation barrier links protein folding to amyloid formation	39
The surprising role of the default mode network in naturalistic perception	39
MethylResolver—a method for deconvoluting bulk DNA methylation profiles into known and unknown cell contents	38
Discovery of stripe rust resistance with incomplete dominance in wild emmer wheat using bulked segregant analysis sequencing	38
Topologically associating domain boundaries are required for normal genome function	38
Sulforaphane exhibits antiviral activity against pandemic SARS-CoV-2 and seasonal HCoV-OC43 coronaviruses in vitro and in mice	38
Simple sequence repeats drive genome plasticity and promote adaptive evolution in penaeid shrimp	38
Cancer-associated hypersialylated MUC1 drives the differentiation of human monocytes into macrophages with a pathogenic phenotype	38
Drosophila melanogaster behaviour changes in different social environments based on group size and density	38
Genomic epidemiology of animal-derived tigecycline-resistant Escherichia coli across China reveals recent endemic plasmid-encoded tet(X4) gene	38
Spatio-molecular domains identified in the mouse subthalamic nucleus and neighboring glutamatergic and GABAergic brain structures	38
SARS-CoV-2 spike opening dynamics and energetics reveal the individual roles of glycans and their collective impact	37
The anesthetic sevoflurane induces tau trafficking from neurons to microglia	37
Fungal mycelium classified in different material families based on glycerol treatment	37
Multi-species and multi-tissue methylation clocks for age estimation in toothed whales and dolphins	37
Multivalent nanoparticle-based vaccines protect hamsters against SARS-CoV-2 after a single immunization	37
Antibodies exhibit multiple paratope states influencing VH–VL domain orientations	37
Dorsal and ventral striatal functional connectivity shifts play a potential role in internet gaming disorder	37
Genome-wide association studies and heritability analysis reveal the involvement of host genetics in the Japanese gut microbiota	37
Cell-free biogenesis of bacterial division proto-rings that can constrict liposomes	37
Naphthoquinone-derivative as a synthetic compound to overcome the antibiotic resistance of methicillin-resistant S. aureus	37
Maximizing transcription of nucleic acids with efficient T7 promoters	37
Structure and function of a malaria transmission blocking vaccine targeting Pfs230 and Pfs230-Pfs48/45 proteins	37
Harmonizing hybridization dissonance in conservation	37
Development of deep learning algorithms for predicting blastocyst formation and quality by time-lapse monitoring	36
Crowding-induced opening of the mechanosensitive Piezo1 channel in silico	36
The cancer glycocalyx mediates intravascular adhesion and extravasation during metastatic dissemination	36
LIVE-PAINT allows super-resolution microscopy inside living cells using reversible peptide-protein interactions	36
High stability and metabolic capacity of bacterial community promote the rapid reduction of easily decomposing carbon in soil	36
A global microbiome survey of vineyard soils highlights the microbial dimension of viticultural terroirs	36
Annotation of chromatin states in 66 complete mouse epigenomes during development	36
Structural basis of coronavirus E protein interactions with human PALS1 PDZ domain	36
Osteopontin binds ICOSL promoting tumor metastasis	36
Outer-membrane-acting peptides and lipid II-targeting antibiotics cooperatively kill Gram-negative pathogens	36
Sedimentary DNA tracks decadal-centennial changes in fish abundance	36
Targeted intracellular degradation of SARS-CoV-2 via computationally optimized peptide fusions	36
Engineering of ultraID, a compact and hyperactive enzyme for proximity-dependent biotinylation in living cells	36
Integrating cell morphology with gene expression and chemical structure to aid mitochondrial toxicity detection	36
DeepBacs for multi-task bacterial image analysis using open-source deep learning approaches	36
Artemisinin resistance in the malaria parasite, Plasmodium falciparum, originates from its initial transcriptional response	35
Tau affects P53 function and cell fate during the DNA damage response	35
Post-correlation on-lamella cryo-CLEM reveals the membrane architecture of lamellar bodies	35
Combination of antiviral drugs inhibits SARS-CoV-2 polymerase and exonuclease and demonstrates COVID-19 therapeutic potential in viral cell culture	35
Global population genomic signature of Spodoptera frugiperda (fall armyworm) supports complex introduction events across the Old World	35
Human TRPC5 structures reveal interaction of a xanthine-based TRPC1/4/5 inhibitor with a conserved lipid binding site	35
Cryo-EM structure of the volume-regulated anion channel LRRC8D isoform identifies features important for substrate permeation	35
An automated platform to monitor long-term behavior and healthspan in Caenorhabditis elegans under precise environmental control	35
Successful delivery of large-size CRISPR/Cas9 vectors in hard-to-transfect human cells using small plasmids	35
Integrated molecular characterisation of the MAPK pathways in human cancers reveals pharmacologically vulnerable mutations and gene dependencies	35
Phylogenetic inference enables reconstruction of a long-overlooked outbreak of almond leaf scorch disease (Xylella fastidiosa) in Europe	35
Organisational and neuromodulatory underpinnings of structural-functional connectivity decoupling in patients with Parkinson’s disease	35
Genome-wide bioinformatic analyses predict key host and viral factors in SARS-CoV-2 pathogenesis	35
Zebrafish xenografts as a fast screening platform for bevacizumab cancer therapy	35
CD70 expression determines the therapeutic efficacy of expanded human regulatory T cells	35
Live cell dynamics of production, explosive release and killing activity of phage tail-like weapons for Pseudomonas kin exclusion	34
A chromosome-level genome sequence of Chrysanthemum seticuspe, a model species for hexaploid cultivated chrysanthemum	34
Human encroachment into wildlife gut microbiomes	34
Reduced C9orf72 function leads to defective synaptic vesicle release and neuromuscular dysfunction in zebrafish	34
SARS-CoV-2 ORF6 disrupts nucleocytoplasmic trafficking to advance viral replication	34
Genomic profiling reveals heterogeneous populations of ductal carcinoma in situ of the breast	34
Structural insights into photoactivation of plant Cryptochrome-2	34
Real-time structure search and structure classification for AlphaFold protein models	34
A pictorial account of the human embryonic heart between 3.5 and 8 weeks of development	34
A dietary anthocyanin cyanidin-3-O-glucoside binds to PPARs to regulate glucose metabolism and insulin sensitivity in mice	34
Chimpanzees produce diverse vocal sequences with ordered and recombinatorial properties	34
Chemokine mediated signalling within arteries promotes vascular smooth muscle cell recruitment	34
Pheromone components affect motivation and induce persistent modulation of associative learning and memory in honey bees	34