eLife

Article	Citations
Escape from neutralizing antibodies by SARS-CoV-2 spike protein variants	1151
Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3	891
A connectome and analysis of the adult Drosophila central brain	639
Atomic structures of respiratory complex III2, complex IV, and supercomplex III2-IV from vascular plants	579
Tracking excess mortality across countries during the COVID-19 pandemic with the World Mortality Dataset	324
A mechanistic model and therapeutic interventions for COVID-19 involving a RAS-mediated bradykinin storm	290
How to measure and evaluate binding affinities	289
DunedinPACE, a DNA methylation biomarker of the pace of aging	279
Effects of common mutations in the SARS-CoV-2 Spike RBD and its ligand, the human ACE2 receptor on binding affinity and kinetics	274
The connectome of the adult Drosophila mushroom body provides insights into function	259
ACE2: Evidence of role as entry receptor for SARS-CoV-2 and implications in comorbidities	253
N501Y mutation of spike protein in SARS-CoV-2 strengthens its binding to receptor ACE2	252
SARS-CoV-2 spike protein induces inflammation via TLR2-dependent activation of the NF-κB pathway	224
Sampling alternative conformational states of transporters and receptors with AlphaFold2	214
An electrophysiological marker of arousal level in humans	210
Does the human placenta express the canonical cell entry mediators for SARS-CoV-2?	208
DNA damage—how and why we age?	203
Antimicrobial resistance and COVID-19: Intersections and implications	203
Lytic transglycosylases mitigate periplasmic crowding by degrading soluble cell wall turnover products	191
Colistin kills bacteria by targeting lipopolysaccharide in the cytoplasmic membrane	184
Cancer-associated fibroblasts and their influence on tumor immunity and immunotherapy	182
FRET-based dynamic structural biology: Challenges, perspectives and an appeal for open-science practices	174
A connectome of the Drosophila central complex reveals network motifs suitable for flexible navigation and context-dependent action selection	171
Standardizing workflows in imaging transcriptomics with the abagen toolbox	171
A whole-brain connectivity map of mouse insular cortex	168

Sex differences in biological aging with a focus on human studies	168
Inhibition of SARS-CoV-2 viral entry upon blocking N- and O-glycan elaboration	166
Differential occupational risks to healthcare workers from SARS-CoV-2 observed during a prospective observational study	165
Structure of the bacterial ribosome at 2 Å resolution	164
Accurate and versatile 3D segmentation of plant tissues at cellular resolution	159
Microbiota-derived short chain fatty acids modulate microglia and promote Aβ plaque deposition	159
Neuronal timescales are functionally dynamic and shaped by cortical microarchitecture	159
SARS-CoV-2 requires cholesterol for viral entry and pathological syncytia formation	155
TRex, a fast multi-animal tracking system with markerless identification, and 2D estimation of posture and visual fields	153
Modular output circuits of the fastigial nucleus for diverse motor and nonmotor functions of the cerebellar vermis	152
A cross-kingdom conserved ER-phagy receptor maintains endoplasmic reticulum homeostasis during stress	151
Simultaneous trimodal single-cell measurement of transcripts, epitopes, and chromatin accessibility using TEA-seq	148
A simple and effective F0 knockout method for rapid screening of behaviour and other complex phenotypes	147
Beyond the RNA-dependent function of LncRNA genes	146
The OpenNeuro resource for sharing of neuroscience data	145
Trends in snakebite deaths in India from 2000 to 2019 in a nationally representative mortality study	145
SpikeInterface, a unified framework for spike sorting	144
Association of Toll-like receptor 7 variants with life-threatening COVID-19 disease in males: findings from a nested case-control study	144
Mechanistic theory predicts the effects of temperature and humidity on inactivation of SARS-CoV-2 and other enveloped viruses	143
The genomic consequences of hybridization	143
Tumor stiffening reversion through collagen crosslinking inhibition improves T cell migration and anti-PD-1 treatment	141
The Spike D614G mutation increases SARS-CoV-2 infection of multiple human cell types	141
Viral load and contact heterogeneity predict SARS-CoV-2 transmission and super-spreading events	138
Mapping single-cell atlases throughout Metazoa unravels cell type evolution	137
Assembly of recombinant tau into filaments identical to those of Alzheimer’s disease and chronic traumatic encephalopathy	135
HP1 proteins compact DNA into mechanically and positionally stable phase separated domains	131
Reporting and misreporting of sex differences in the biological sciences	131
SON and SRRM2 are essential for nuclear speckle formation	130
A versatile oblique plane microscope for large-scale and high-resolution imaging of subcellular dynamics	128
Single-cell multiomic profiling of human lungs reveals cell-type-specific and age-dynamic control of SARS-CoV2 host genes	128
Racial inequity in grant funding from the US National Institutes of Health	124
A fully automated high-throughput workflow for 3D-based chemical screening in human midbrain organoids	122
An open label trial of anakinra to prevent respiratory failure in COVID-19	122
Challenges for assessing replicability in preclinical cancer biology	121
An open-source, high-performance tool for automated sleep staging	121
Training deep neural density estimators to identify mechanistic models of neural dynamics	120
Tailored design of protein nanoparticle scaffolds for multivalent presentation of viral glycoprotein antigens	120
Investigating the replicability of preclinical cancer biology	119
Discovery of a molecular glue promoting CDK12-DDB1 interaction to trigger cyclin K degradation	119
Microglial calcium signaling is attuned to neuronal activity in awake mice	118
The mTORC1-mediated activation of ATF4 promotes protein and glutathione synthesis downstream of growth signals	118
Effector membrane translocation biosensors reveal G protein and βarrestin coupling profiles of 100 therapeutically relevant GPCRs	118
A Bayesian approach to single-particle electron cryo-tomography in RELION-4.0	117
Metabolic biomarker profiling for identification of susceptibility to severe pneumonia and COVID-19 in the general population	117
Ribosome collisions trigger cis-acting feedback inhibition of translation initiation	116
Genetic architecture of 11 organ traits derived from abdominal MRI using deep learning	115
Single-nucleus transcriptomic analysis of human dorsal root ganglion neurons	115
Relationship between simultaneously recorded spiking activity and fluorescence signal in GCaMP6 transgenic mice	113
Generation of vascularized brain organoids to study neurovascular interactions	112
Highly contiguous assemblies of 101 drosophilid genomes	112

SARS-CoV-2 entry into human airway organoids is serine protease-mediated and facilitated by the multibasic cleavage site	111
Diverse viral proteases activate the NLRP1 inflammasome	108
Heterogeneity in transmissibility and shedding SARS-CoV-2 via droplets and aerosols	106
Ageing compromises mouse thymus function and remodels epithelial cell differentiation	105
EDF1 coordinates cellular responses to ribosome collisions	105
Convalescent COVID-19 patients are susceptible to endothelial dysfunction due to persistent immune activation	105
Information flow, cell types and stereotypy in a full olfactory connectome	105
A powerful drug combination strategy targeting glutamine addiction for the treatment of human liver cancer	105
The Mouse Action Recognition System (MARS) software pipeline for automated analysis of social behaviors in mice	105
Patterns of within-host genetic diversity in SARS-CoV-2	104
Cytotoxic T-cells mediate exercise-induced reductions in tumor growth	104
The LOTUS initiative for open knowledge management in natural products research	104
Modelling the impact of decidual senescence on embryo implantation in human endometrial assembloids	103
Human DECR1 is an androgen-repressed survival factor that regulates PUFA oxidation to protect prostate tumor cells from ferroptosis	102
An interactive meta-analysis of MRI biomarkers of myelin	102
Intrinsic excitation-inhibition imbalance affects medial prefrontal cortex differently in autistic men versus women	102
Modality-specific tracking of attention and sensory statistics in the human electrophysiological spectral exponent	101
Diversity and asynchrony in soil microbial communities stabilizes ecosystem functioning	100
Simple biochemical features underlie transcriptional activation domain diversity and dynamic, fuzzy binding to Mediator	100
Transmission of West Nile and five other temperate mosquito-borne viruses peaks at temperatures between 23°C and 26°C	100
SARS-CoV-2 S protein:ACE2 interaction reveals novel allosteric targets	99
Quantifying the relationship between SARS-CoV-2 viral load and infectiousness	99
Lef1 expression in fibroblasts maintains developmental potential in adult skin to regenerate wounds	99
Symbiont-mediated cytoplasmic incompatibility: What have we learned in 50 years?	98
Topographic gradients of intrinsic dynamics across neocortex	98
Real-time, low-latency closed-loop feedback using markerless posture tracking	97
Analysis of the immune response to sciatic nerve injury identifies efferocytosis as a key mechanism of nerve debridement	96
Self-blinding citizen science to explore psychedelic microdosing	95
Sleep spindles mediate hippocampal-neocortical coupling during long-duration ripples	95
The diversity and function of sourdough starter microbiomes	94
Structural and functional characterization of G protein–coupled receptors with deep mutational scanning	93
An ER translocon for multi-pass membrane protein biogenesis	93
Longitudinal high-throughput TCR repertoire profiling reveals the dynamics of T-cell memory formation after mild COVID-19 infection	93
Standardized and reproducible measurement of decision-making in mice	93
Plasmodium falciparum K13 mutations in Africa and Asia impact artemisinin resistance and parasite fitness	92
Transcriptional profiling of mouse peripheral nerves to the single-cell level to build a sciatic nerve ATlas (SNAT)	91
DeepEthogram, a machine learning pipeline for supervised behavior classification from raw pixels	91
How many neurons are sufficient for perception of cortical activity?	90
Individual variations in ‘brain age’ relate to early-life factors more than to longitudinal brain change	90
A cell atlas of the chick retina based on single-cell transcriptomics	90
GENESPACE tracks regions of interest and gene copy number variation across multiple genomes	90
Single nuclei RNA-seq of mouse placental labyrinth development	89
Ct threshold values, a proxy for viral load in community SARS-CoV-2 cases, demonstrate wide variation across populations and over time	89
TCR meta-clonotypes for biomarker discovery with tcrdist3 enabled identification of public, HLA-restricted clusters of SARS-CoV-2 TCRs	88
A lung-on-chip model of early Mycobacterium tuberculosis infection reveals an essential role for alveolar epithelial cells in controlling bacterial growth	88
Small molecule cognitive enhancer reverses age-related memory decline in mice	88
CD163 and pAPN double-knockout pigs are resistant to PRRSV and TGEV and exhibit decreased susceptibility to PDCoV while maintaining normal production performance	88
Virtual conferences raise standards for accessibility and interactions	87
Dissecting the immunosuppressive tumor microenvironments in Glioblastoma-on-a-Chip for optimized PD-1 immunotherapy	87
Visualizing cellular and tissue ultrastructure using Ten-fold Robust Expansion Microscopy (TREx)	87
A taxonomy of seizure dynamotypes	86
Expandable and reversible copy number amplification drives rapid adaptation to antifungal drugs	86
Plasma proteomic biomarker signature of age predicts health and life span	86
Neural effects of propofol-induced unconsciousness and its reversal using thalamic stimulation	86
Structural basis for SARM1 inhibition and activation under energetic stress	85
GWAS of three molecular traits highlights core genes and pathways alongside a highly polygenic background	85
A transcriptomic taxonomy of Drosophila circadian neurons around the clock	85
Dynamics of gaze control during prey capture in freely moving mice	85
Genetic mapping of etiologic brain cell types for obesity	85
How subtle changes in 3D structure can create large changes in transcription	85
The orchestrated cellular and molecular responses of the kidney to endotoxin define a precise sepsis timeline	84
Cortical astrocytes independently regulate sleep depth and duration via separate GPCR pathways	84
Multi-omic rejuvenation of human cells by maturation phase transient reprogramming	83
The frequency gradient of human resting-state brain oscillations follows cortical hierarchies	83
Visualizing anatomically registered data with brainrender	83
In vivo reconstitution finds multivalent RNA–RNA interactions as drivers of mesh-like condensates	83
An improved zebrafish transcriptome annotation for sensitive and comprehensive detection of cell type-specific genes	82
Myogenin is an essential regulator of adult myofibre growth and muscle stem cell homeostasis	82
Pathogenic mechanisms of post-acute sequelae of SARS-CoV-2 infection (PASC)	81
Functional reconstitution of a bacterial CO2 concentrating mechanism in Escherichia coli	81
Augmented curation of clinical notes from a massive EHR system reveals symptoms of impending COVID-19 diagnosis	81
A high rate of COVID-19 vaccine hesitancy in a large-scale survey on Arabs	81
COVID-19 CG enables SARS-CoV-2 mutation and lineage tracking by locations and dates of interest	81
Early postmortem mapping of SARS-CoV-2 RNA in patients with COVID-19 and the correlation with tissue damage	80
Spatiotemporal dynamics of PIEZO1 localization controls keratinocyte migration during wound healing	80
HIV-1 uncoating by release of viral cDNA from capsid-like structures in the nucleus of infected cells	80
Efficient chromatin accessibility mapping in situ by nucleosome-tethered tagmentation	79
GAF is essential for zygotic genome activation and chromatin accessibility in the early Drosophila embryo	79
Structural basis of mitochondrial translation	79
Empathic pain evoked by sensory and emotional-communicative cues share common and process-specific neural representations	78

Quantifying the relationship between genetic diversity and population size suggests natural selection cannot explain Lewontin’s Paradox	78
Changes in ferrous iron and glutathione promote ferroptosis and frailty in aging Caenorhabditis elegans	78
Structure of human Frizzled5 by fiducial-assisted cryo-EM supports a heterodimeric mechanism of canonical Wnt signaling	78
mTOR signaling regulates the morphology and migration of outer radial glia in developing human cortex	77
Evidence for adaptive evolution in the receptor-binding domain of seasonal coronaviruses OC43 and 229e	77
Broad geographic sampling reveals the shared basis and environmental correlates of seasonal adaptation in Drosophila	77
Single mosquito metatranscriptomics identifies vectors, emerging pathogens and reservoirs in one assay	77
Viral persistence, reactivation, and mechanisms of long COVID	77
HP1α is a chromatin crosslinker that controls nuclear and mitotic chromosome mechanics	76
Systematic examination of low-intensity ultrasound parameters on human motor cortex excitability and behavior	76
Selective sorting of microRNAs into exosomes by phase-separated YBX1 condensates	76
Obesity causes selective and long-lasting desensitization of AgRP neurons to dietary fat	76
Freshwater monitoring by nanopore sequencing	76
Structural basis for PRC2 decoding of active histone methylation marks H3K36me2/3	76
Fitness variation across subtle environmental perturbations reveals local modularity and global pleiotropy of adaptation	76
The brain in motion: How ensemble fluidity drives memory-updating and flexibility	75
Ral GTPases promote breast cancer metastasis by controlling biogenesis and organ targeting of exosomes	75
Performance of a deep learning based neural network in the selection of human blastocysts for implantation	75
Type 2 diabetes mellitus accelerates brain aging and cognitive decline: Complementary findings from UK Biobank and meta-analyses	74
A visual pathway for skylight polarization processing in Drosophila	74
Functional specialization within the inferior parietal lobes across cognitive domains	74
Dynamically evolving novel overlapping gene as a factor in the SARS-CoV-2 pandemic	74
PARP1 inhibitors trigger innate immunity via PARP1 trapping-induced DNA damage response	74
Human airway cells prevent SARS-CoV-2 multibasic cleavage site cell culture adaptation	74
Mouse aging cell atlas analysis reveals global and cell type-specific aging signatures	74
Transport of DNA within cohesin involves clamping on top of engaged heads by Scc2 and entrapment within the ring by Scc3	73
DNA methylation meta-analysis reveals cellular alterations in psychosis and markers of treatment-resistant schizophrenia	73
A modular platform for automated cryo-FIB workflows	73
Ferroptotic stress promotes the accumulation of pro-inflammatory proximal tubular cells in maladaptive renal repair	73
Global epistasis emerges from a generic model of a complex trait	73
Association of lipid-lowering drugs with COVID-19 outcomes from a Mendelian randomization study	72
Sensory restoration by epidural stimulation of the lateral spinal cord in upper-limb amputees	72
A single-cell atlas of the mouse and human prostate reveals heterogeneity and conservation of epithelial progenitors	71
Charting brain growth and aging at high spatial precision	71
Single-cell transcriptomes of developing and adult olfactory receptor neurons in Drosophila	71
Demographic history mediates the effect of stratification on polygenic scores	71
Single-cell analysis of the ventricular-subventricular zone reveals signatures of dorsal and ventral adult neurogenesis	71
Profiling sensory neuron microenvironment after peripheral and central axon injury reveals key pathways for neural repair	71
Late-life restoration of mitochondrial function reverses cardiac dysfunction in old mice	70
Obesity and diabetes as comorbidities for COVID-19: Underlying mechanisms and the role of viral–bacterial interactions	70
Cell types and neuronal circuitry underlying female aggression in Drosophila	70
Protein phase separation and its role in tumorigenesis	70
Neurovascular coupling and bilateral connectivity during NREM and REM sleep	70
Structural and mechanistic basis of the EMC-dependent biogenesis of distinct transmembrane clients	69
Apelin signaling drives vascular endothelial cells toward a pro-angiogenic state	69
Generation of stress fibers through myosin-driven reorganization of the actin cortex	69
Quantitative proteomics reveals the selectivity of ubiquitin-binding autophagy receptors in the turnover of damaged lysosomes by lysophagy	69
Mitochondrial fatty acid synthesis coordinates oxidative metabolism in mammalian mitochondria	69
High-resolution transcriptional and morphogenetic profiling of cells from micropatterned human ESC gastruloid cultures	68
Evidence for additive and synergistic action of mammalian enhancers during cell fate determination	68
Brain endothelial cell TRPA1 channels initiate neurovascular coupling	68
Irisin directly stimulates osteoclastogenesis and bone resorption in vitro and in vivo	68
Bidirectional synaptic plasticity rapidly modifies hippocampal representations	68
Proteomic and transcriptomic profiling reveal different aspects of aging in the kidney	68
A flexible framework for simulating and fitting generalized drift-diffusion models	67
Common coupling map advances GPCR-G protein selectivity	67
The molecular basis of coupling between poly(A)-tail length and translational efficiency	67
Failures of nerve regeneration caused by aging or chronic denervation are rescued by restoring Schwann cell c-Jun	67
Iron derived from autophagy-mediated ferritin degradation induces cardiomyocyte death and heart failure in mice	67
Respiration aligns perception with neural excitability	67
On the emergence of P-Loop NTPase and Rossmann enzymes from a Beta-Alpha-Beta ancestral fragment	66
Early analysis of the Australian COVID-19 epidemic	66
Regulatory roles of Escherichia coli 5' UTR and ORF-internal RNAs detected by 3' end mapping	66
Sexual dimorphism in trait variability and its eco-evolutionary and statistical implications	66
Revealing architectural order with quantitative label-free imaging and deep learning	65
Adult stem cell-derived complete lung organoid models emulate lung disease in COVID-19	65
Quantifying the impact of quarantine duration on COVID-19 transmission	65
Locating macromolecular assemblies in cells by 2D template matching with cisTEM	65
Mouse T cell priming is enhanced by maturation-dependent stiffening of the dendritic cell cortex	65
Distinct temporal difference error signals in dopamine axons in three regions of the striatum in a decision-making task	65
Sensory coding and the causal impact of mouse cortex in a visual decision	65
Chemoreceptor co-expression in Drosophila melanogaster olfactory neurons	64
Molecular mechanism for direct actin force-sensing by α-catenin	64
The Arabidopsis active demethylase ROS1 cis-regulates defence genes by erasing DNA methylation at promoter-regulatory regions	64
Anti-ferroptotic mechanism of IL4i1-mediated amino acid metabolism	64
Acetylcholine is released in the basolateral amygdala in response to predictors of reward and enhances the learning of cue-reward contingency	64
Heterogeneity of murine periosteum progenitors involved in fracture healing	64
Stable task information from an unstable neural population	64
An increase of inhibition drives the developmental decorrelation of neural activity	63
High social status males experience accelerated epigenetic aging in wild baboons	63
To lie or not to lie: Super-relaxing with myosins	63
The global burden of yellow fever	63
Walking Drosophila navigate complex plumes using stochastic decisions biased by the timing of odor encounters	63
Cohesin residency determines chromatin loop patterns	63
The right time for senescence	63
Dissecting cell-type-specific metabolism in pancreatic ductal adenocarcinoma	62
An integrative study of five biological clocks in somatic and mental health	62
An open-source device for measuring food intake and operant behavior in rodent home-cages	62
Linking mPFC circuit maturation to the developmental regulation of emotional memory and cognitive flexibility	62
Parallel global profiling of plant TOR dynamics reveals a conserved role for LARP1 in translation	62
Phenotypic analysis of the unstimulated in vivo HIV CD4 T cell reservoir	62
Phenotypic and molecular evolution across 10,000 generations in laboratory budding yeast populations	62
Niche partitioning facilitates coexistence of closely related honey bee gut bacteria	62
Multiplexed measurement of variant abundance and activity reveals VKOR topology, active site and human variant impact	62
Pharmacological rescue of impaired mitophagy in Parkinson’s disease-related LRRK2 G2019S knock-in mice	61