|
Spatial-aware detection of copy number alterations from spatial transcriptomics using SpaCNA
|
1.00 |
|
Accurate profiling of single-cell alternative transcript start sites by correcting RNA degradation
|
1.00 |
|
Improving genomic prediction accuracy of complex traits by integrating massive types of functional annotation information
|
0.92 |
|
Chromatin accessibility landscape and its association with heterosis in maize hybrids
|
0.92 |
|
Mapping glioblastoma’s isoform diversity using long-read single-cell analysis
|
1.00 |
|
Horizontal gene transfer and diploidy illuminate evolution and stress adaptation in oleaginous Scenedesmaceae (Chlorophyta)
|
0.58 |
|
CellNiche represents cellular microenvironments in atlas-scale spatial omics data with contrastive learning
|
1.00 |
|
Multivariate genetic analysis reveals three distinct pathological dimensions in musculoskeletal disorders
|
0.89 |
|
Population differences of chromosome 22q11.2 duplication structure predispose differentially to microdeletion and inversion
|
0.01 |
|
Conserved and divergent gene regulatory networks for crop drought resistance
|
1.00 |
|
UK BioCoin: swift trait-specific summary statistics regression for UK Biobank
|
0.91 |
|
Pan-organ poly(A) atlas reveals a post-transcriptional regulatory layer independent of RNA abundance
|
1.00 |
|
SpatialCOC: an integrative framework for spatial continuous mapping and cross-omics correction in spatial multi-omics data
|
0.97 |
|
Meta-encoder: a unified integration framework for multiple pathological foundation models in cancer detection
|
1.00 |
|
A multi-modal diffusion model with dual-cross-attention for multi-omics data generation and translation
|
0.80 |
|
Hi-Compass: a depth-aware deep learning framework for predicting cell-type-specific 3D genome organization from single-cell to spatial resolution
|
1.00 |
|
Characterizing gene perturbations in single cells via network divergence analysis
|
1.00 |
|
Scaling up Bayesian population phylogenomics through virtual dimension reduction
|
0.40 |
|
CellLoop: Identifying single-cell 3D genome chromatin loops
|
1.00 |
|
An end-to-end generalizable deep learning framework to comprehensively analyze transcriptional regulation
|
0.92 |
|
The landscape and regulatory potential of eccDNAs in mammalian preimplantation embryos
|
1.00 |
|
Cell neighborhood topology directs rare cell population identification
|
1.00 |
|
Determinants of chromosome-specific telomere lengths among 2573 All of Us participants
|
0.13 |
|
A metrological foundation for absolute transcriptomics using International System of Units-anchored calibrators
|
1.00 |
|
Leveraging weighted embedding and Transformer architecture to improve phenotype prediction of complex traits for crops
|
0.86 |
|
An integrated germline and somatic genomic model for coronary artery disease
|
0.13 |
|
Network model for alignment, stitching and slice-to-volume 3D reconstruction of large-scale spatially resolved slices
|
1.00 |
|
Ultra-precision deconvolution of spatial transcriptomics decodes immune heterogeneity and fate-defining programs in tissues
|
1.00 |
|
Single-cell spatial map of cis-regulatory elements for disease-related genes in the macaque cortex
|
1.00 |
|
FineST: contrastive learning integrates histology and spatial transcriptomics for nuclei-resolved ligand-receptor analysis
|
1.00 |
|
Illuminating cell states by a comprehensive and interpretable single cell foundation model
|
1.00 |
|
EPInformer: scalable and integrative prediction of gene expression from promoter-enhancer sequences with multimodal epigenomic profiles
|
0.53 |
|
Optimizing global genomic surveillance for early detection of emerging SARS-CoV-2 variants
|
0.77 |
|
Enzymatic colorimetric encoding-based digital medicine for pancreatic cancer diagnosis
|
1.00 |
|
Genetic alternative splicing regulation mapping of cartilage and synovium reveals tissue-specific mechanisms of joint-related traits
|
1.00 |
|
An H3K14ub-H3K9me3 feedback circuit governs heterochromatin spreading and inheritance in fission yeast
|
0.50 |
|
DiNovo enables high-coverage and high-confidence de novo peptide sequencing via mirror proteases and deep learning
|
1.00 |
|
Genetic variations interact with polybrominated diphenyl ether exposure to alter lipid homeostasis
|
1.00 |
|
Molecular basis for the inhibition of de novo DNA methylation by TCL1A
|
0.92 |
|
Branched-chain α-keto acids impair glucose-stimulated insulin secretion in pancreatic β-cells under diabetes by reactivating the LDHA-lactate axis
|
0.94 |
|
HRCHY-CytoCommunity identifies hierarchical tissue organization in cell-type spatial maps
|
1.00 |
|
Polymorphism and evolutionary origins of accessory chromosomes in the basidiomycete Tremella fuciformis
|
0.97 |
|
Population genomics reveals association of transposable elements variants with climatic adaptation in wild Amur grape
|
0.89 |
|
Mistranslation suppresses mistranscription in eukaryotes
|
1.00 |
|
Nanopore-based massively parallel sensing for peptide profiling and protein identification
|
1.00 |
|
Sub-pangenome analysis reveals structural variants associated with fruit color and bacterial wilt resistance in eggplant
|
0.94 |
|
Multi-species integration, alignment and annotation of single-cell RNA-seq data with CAMEX
|
1.00 |
|
Enhancing microbial metabolic capacity through high-energy electron beam-induced intense structural variations
|
0.94 |
|
OmiGA for ultra-efficient molecular quantitative trait loci mapping
|
0.86 |
|
genome analyses indicate introgression may drive local adaptation and herbicide resistance
|
0.84 |
|
Single-cell resolution of splicing regulation in peripheral blood mononuclear cells uncovers heterogeneity-driven mechanisms underlying human complex traits
|
1.00 |
|
XL-MSDigger: a deep learning-based, versatile solution for cross-linking mass spectrometry
|
0.76 |
|
A catalogue of early diverged contemporary human genome variation reveals distinct Khoe-San populations
|
0.03 |
|
A generic reference defined by consensus peaks for single-cell ATAC-seq data analysis
|
1.00 |
|
Analysis of the transcriptomic and metabolomic landscape of prostate cancer with different anatomical origins using snFLARE-seq and mxFRIZNGRND
|
1.00 |
|
Genomics of rafting crustaceans reveals adaptation to climate change in tropical oceans
|
0.71 |
|
Integrative functional genomics analysis identifies pleiotropic genes for vascular diseases
|
0.15 |
|
Genomic consequences of residual recombination in a hybrid apomictic hickory complex
|
0.67 |
|
Boosting the detection of enhancer-promoter loops via normalization methods for chromatin interaction data
|
1.00 |
|
An absolute quantification atlas of small non-coding RNAs across diverse mammalian tissues and cell lines
|
1.00 |
|
AI-based multiomics profiling reveals complementary omics contributions to personalized prediction of cardiovascular disease
|
0.88 |
|
DNA diamond formulates a decomposable composite letter constellation model for DNA data storage
|
1.00 |
|
Crowdsourced biodiversity monitoring fills gaps in global plant trait mapping
|
0.01 |
|
A versatile platform for sequential glyco-, phospho-, and proteomics with multi-PTMs integration
|
1.00 |
|
A proteogenomic atlas of 1032 brain metastases identifies molecular subtypes, immune landscapes, and therapeutic vulnerabilities
|
1.00 |
|
Comprehensive benchmarking single and multi ancestry polygenic score methods with the PGS-hub platform
|
0.91 |
|
Essential role of NONO-HOXA1-Wnt axis in cardiomyocyte differentiation
|
0.90 |
|
ProteoAutoNet: high-throughput co-eluted protein analysis with robotics and machine learning
|
1.00 |
|
A dual context-aware basecaller for nanopore direct RNA sequencing
|
1.00 |
|
Robust characterization and interpretation of rare pathogenic cell populations from spatial omics using GARDEN
|
0.80 |
|
TidyMass2: advancing LC-MS untargeted metabolomics through metabolite origin inference and metabolic feature-based functional module analysis
|
0.43 |
|
Genetic insights and mechanistic parallels in gestational diabetes mellitus and type 2 diabetes
|
1.00 |
|
Mixed-model and transcriptome-wide association analyses identify transcription factors and genes associated with colorectal cancer susceptibility
|
0.10 |
|
Comprehensive mapping of RNA modification dynamics and crosstalk via deep learning and nanopore direct RNA-sequencing
|
1.00 |
|
The Camellia sinensis var. sinensis cv. Fuding Dabaicha genome unveils structural variation-driven metabolic innovation
|
0.60 |
|
Cross-species dissection of saline-related genes by genetically deciphering a euryhaline microalga sp
|
1.00 |
|
Integrated multi-omic atlas reveals the hierarchy of spatiotemporal regulatory networks of mouse gastrulation
|
0.93 |
|
Pulsed evolution shaped extant angiosperm pollen disparity
|
0.75 |
|
Genomic dissection of the clonal background and global dissemination of hypervirulent CG23-KL57 lineage
|
0.88 |
|
Multi-organ network of cardiometabolic disease-depression multimorbidity revealed by phenotypic and genetic analyses of MR images
|
1.00 |
|
DNA actively regulates the “safety-belt” dynamics of condensin during loop extrusion
|
1.00 |
|
Phylogenomic profile of exon-intron organization across angiosperms, their relationships with protein domains, and functional implications
|
0.63 |
|
VACmap: an accurate long-read aligner for unraveling complex genomic rearrangements
|
0.44 |
|
CellScope: high-performance cell atlas workflow with tree-structured representation
|
0.14 |
|
Genetic Insights into Head-to-Body Ratios Via Deep Learning-Based Image Segmentation and Implications for Common Diseases
|
1.00 |
|
Proteomic signatures of smoking and their associations with risk of incident diseases and mortality in diverse populations
|
0.17 |
|
Distinct immune cell dynamics associated with immune-related adverse events during combined chemoradiation and immune checkpoint inhibitor therapy
|
1.00 |
|
Clair3-RNA: a deep learning-based small variant caller for long-read RNA sequencing data
|
0.70 |
|
Analysis genome of Pseudotaxus chienii reveals insights into the origin and evolution of taxane biosynthesis
|
1.00 |
|
Analysis of a near telomere-to-telomere genome of Phellodendron amurense reveals insights into berberine biosynthesis
|
0.91 |
|
Chromosome-level assembly and analysis of three hydroxy fatty acid-producing Physaria species
|
0.75 |
|
Population-scale gene expression analysis reveals the contribution of expression diversity to the modern wheat improvement
|
1.00 |
|
A comprehensive database for high-throughput identification of archaeal lipids using high-resolution mass spectrometry
|
0.85 |
|
A multimodal knowledge-enhanced whole-slide pathology foundation model
|
1.00 |
|
Genetic profiling of the circulating proteome in common diseases suggests causal proteins and improves risk prediction
|
1.00 |
|
Co-condensation between transcription factor and cBAF selectively modulates chromatin remodeling and gene expression
|
1.00 |
|
Generalizable morphological profiling of cells by interpretable unsupervised learning
|
1.00 |
|
Biologically-informed integration of drug representations for breast cancer treatment using deep learning
|
1.00 |
|
The bHLH transcription factor PIL1 orchestrates starch synthesis in key cereal crops
|
1.00 |
|
Transformer-based deep learning enhances discovery in migraine GWAS
|
0.88 |
|
The genetic architecture of brainstem structures
|
1.00 |
|
Egg-laying ChickenGTEx resource deciphers context-specific regulatory effects on fertility traits
|
0.79 |
|
Benchmarking pre-trained genomic language models for RNA sequence-related predictive applications
|
1.00 |
|
Inducible chromosomal rearrangement reveals nonlinear polygenic dosage effects in driving aneuploid yeast traits
|
1.00 |
|
MetaboLM: a metabolomic language model for multi-disease early prediction and risk stratification
|
0.96 |
|
Telomere-to-telomere genome assembly of the Dipteran Bactrocera dorsalis from a single individual
|
1.00 |
|
Near complete assembly of Drosophila melanogaster Canton S strain genome
|
1.00 |
|
Deciphering gene redundancy in prokaryotic genomes provides evolutionary insights for pathogenicity and its roles in clinical infections
|
1.00 |
|
Impact of common variants on brain gene expression from RNA to protein to schizophrenia risk
|
0.27 |
|
AI-augmented intraoperative decision-making workflows in diffuse midline glioma biopsy using cryosection pathology
|
0.93 |
|
scGALA advances graph link prediction-based cell alignment for comprehensive data integration and harmonization
|
0.14 |
|
Integrating axis quantitative trait loci looks beyond cell types and offers insights into brain-related traits
|
0.11 |
|
Explainable AI unravels sepsis heterogeneity via coagulation-inflammation profiles for prognosis and stratification
|
0.98 |
|
Multi-omics analyses reveal regulatory networks underpinning metabolite biosynthesis in Nicotiana tabacum
|
1.00 |
|
Deriving consensus sepsis clusters via goal-directed subgroup identification in multi-omics study
|
0.89 |
|
Addressing the specific roles of histone modifications in transcriptional repression
|
0.04 |
|
Benchmarking informatics workflows for data-independent acquisition single-cell proteomics
|
1.00 |
|
Multi-centric origins and gene flow shape the diversity of β-thalassemia mutations in Southern East Asia
|
0.88 |
|
Omnireg-gpt: a high-efficiency foundation model for comprehensive genomic sequence understanding
|
1.00 |
|
CANTAC-seq analysis reveals E2f1 and Otx1 coordinate zygotic genome activation in Xenopus tropicalis
|
1.00 |
|
Conservation and variability of long-range interactions in structurally diverse maize genomes
|
0.63 |
|
ERNIE-RNA: an RNA language model with structure-enhanced representations
|
1.00 |
|
Approaching single-molecule assembly-free readout from medium-length encoded DNA
|
1.00 |
|
Genetic underpinnings and causal effects of brain structure and function on chronic pain intensity
|
1.00 |
|
PGAP2: A comprehensive toolkit for prokaryotic pan-genome analysis based on fine-grained feature networks
|
1.00 |
|
Protein-level batch-effect correction enhances robustness in MS-based proteomics
|
1.00 |
|
Gain of Alternative Allele Expression of at rs149707223 in Schizophrenia and Bipolar Disorder: Inducing Synaptic Transmission and Behavioral Deficits in Mice
|
1.00 |
|
Deciphering splicing heterogeneity at single-cell resolution by SCSES
|
1.00 |
|
MultiGATE: integrative analysis and regulatory inference in spatial multi-omics data via graph representation learning
|
1.00 |
|
Empowering low-crosstalk, dynamic-decision random access of DNA storage via 384-multiplexed nanopore signatures
|
1.00 |
|
Systematic benchmarking of high-throughput subcellular spatial transcriptomics platforms across human tumors
|
1.00 |
|
Methylation reference datasets from quartet DNA materials for benchmarking epigenome sequencing
|
1.00 |
|
Image-based DNA sequencing encoding for detecting low-mosaicism somatic mobile element insertions
|
0.78 |
|
scTFBridge: a disentangled deep generative model informed by TF-motif binding for gene regulation inference in single-cell multi-omics
|
1.00 |
|
The effect of type 2 diabetes genetic predisposition on non-cardiovascular comorbidities
|
0.03 |
|
Combined SNPs sequencing and allele specific proteomics capture reveal functional causality underpinning the 2p25 prostate cancer susceptibility locus
|
0.82 |
|
Integrating cross-sample and cross-modal data for spatial transcriptomics and metabolomics with SpatialMETA
|
0.87 |
|
Conformational plasticity of disordered regions enables sequence-diverse DNA recognition by transcription factor AflR
|
0.92 |
|
The inner nuclear membrane protein LEMD3 organizes the 3D chromatin architecture to maintain vascular smooth muscle cell identity
|
1.00 |
|
Polygenic risk score for type 2 diabetes shows context-dependent effects across populations
|
0.00 |
|
Contribution of leukocyte telomere length to cardiovascular disease onset from genome-wide cross-trait analysis
|
0.88 |
|
TP63 mediates the generation of tumour-specific chromatin loops that underlie MYC activation in radiation-induced tumorigenesis
|
1.00 |
|
Forward and reverse genomic screens enhance the understanding of phenotypic variation in a large Chinese rhesus macaque cohort
|
0.96 |
|
A basic framework to explain splice-site choice in eukaryotes
|
0.06 |
|
The genetic diversity of Indonesian cattle has been shaped by multiple introductions and adaptive introgression
|
0.03 |
|
Shared genetic architecture contributes to risk of major cardiovascular diseases
|
0.88 |
|
Genetic architecture of plasma metabolome in 254,825 individuals
|
0.97 |
|
A mesothelial differentiation gateway drives fibrosis
|
0.07 |
|
Prediction of cellular morphology changes under perturbations with a transcriptome-guided diffusion model
|
0.60 |
|
CLADES: a hybrid NeuralODE-Gillespie approach for unveiling clonal cell fate and differentiation dynamics
|
0.33 |
|
Knowledge and data-driven two-layer networking for accurate metabolite annotation in untargeted metabolomics
|
1.00 |
|
Reprogramming the tumor microenvironment with c-MYC-based gene circuit platform to enhance specific cancer immunotherapy
|
1.00 |
|
DECIPHER for learning disentangled cellular embeddings in large-scale heterogeneous spatial omics data
|
1.00 |
|
Crotonylation of IDH1 alleviates MASLD progression by enhancing the TCA cycle
|
1.00 |
|
SpaIM: single-cell spatial transcriptomics imputation via style transfer
|
0.13 |
|
Finding spatially variable ligand-receptor interactions with functional support from downstream genes
|
1.00 |
|
MR-EILLS: an invariance-based Mendelian randomization method integrating multiple heterogeneous GWAS summary datasets
|
1.00 |
|
Pangenome analysis of transposable element insertion polymorphisms reveals features underlying cold tolerance in rice
|
1.00 |
|
Mechanism of parent-of-origin effects revealed by multi-omic data in euro-chinese hybrid pigs
|
1.00 |
|
Reticulate allopolyploidy and subsequent dysploidy drive evolution and diversification in the cotton family
|
0.83 |
|
DNA polymerase actively and sequentially displaces single-stranded DNA-binding proteins
|
0.13 |
|
Non-coding genetic elements of lung cancer identified using whole genome sequencing in 13,722 Chinese
|
1.00 |
|
A framework for complex signal processing via synthetic biological operational amplifiers
|
1.00 |
|
Identification of multiple genomic alterations and prediction of neoantigens from circulating tumor cells at the single-cell level
|
1.00 |
|
PhyloTune: An efficient method to accelerate phylogenetic updates using a pretrained DNA language model
|
0.89 |
|
Triple-effect correction for Cell Painting data with contrastive and domain-adversarial learning
|
1.00 |
|
Causal disentanglement for single-cell representations and controllable counterfactual generation
|
1.00 |
|
Natural variation of an E3 ubiquitin ligase encoding gene regulates grain chalkiness in rice
|
1.00 |
|
Personalized risk stratification in colorectal cancer via PIANOS system
|
1.00 |
|
Deep learning-based high-resolution time inference for deciphering dynamic gene regulation from fixed embryos
|
1.00 |
|
Combined genome-wide association study of facial traits in Europeans increases explained variance and improves prediction
|
0.11 |
|
High-resolution mapping of single cells in spatial context
|
1.00 |
|
Quantitative phase imaging with temporal kinetics predicts hematopoietic stem cell diversity
|
0.05 |
|
Quantification of transcript isoforms at the single-cell level using SCALPEL
|
0.14 |
|
The subordinate role of pseudogenization to recombinative deletion following polyploidization in angiosperms
|
0.08 |
|
Automated cell annotation and classification on histopathology for spatial biomarker discovery
|
0.10 |
|
Serum metabolic profiling enables diagnosis, prognosis, and monitoring for brainstem gliomas
|
1.00 |
|
Prioritizing perturbation-responsive gene patterns using interpretable deep learning
|
1.00 |
|
LassoPred: a tool to predict the 3D structure of lasso peptides
|
0.21 |
|
-adjacent super-enhancer functions as a 3D genome structure-dependent transcriptional driver to safeguard ESC identity
|
1.00 |
|
High-resolution detection of copy number alterations in single cells with HiScanner
|
0.17 |
|
Mapping the regulatory genetic landscape of complex traits using a chicken advanced intercross line
|
0.81 |
|
Shared genetic architecture of posttraumatic stress disorder with cardiovascular imaging, risk, and diagnoses
|
0.01 |
|
cTAGE5 is essential for adipogenesis and adipose tissue development
|
1.00 |
|
An improved reference library and method for accurate cell-type deconvolution of bulk-tissue miRNA data
|
1.00 |
|
Deep generalizable prediction of RNA secondary structure via base pair motif energy
|
1.00 |
|
Analysis of the geneome identifies RcCYP72H7 as an epoxidase in iridoid glycoside biosynthesis
|
1.00 |
|
MassCube improves accuracy for metabolomics data processing from raw files to phenotype classifiers
|
0.17 |
|
DrFARM: identification of pleiotropic genetic variants in genome-wide association studies
|
0.14 |
|
Genomic and epigenomic insight into giga-chromosome architecture and adaptive evolution of royal lily ()
|
1.00 |
|
stClinic dissects clinically relevant niches by integrating spatial multi-slice multi-omics data in dynamic graphs
|
1.00 |
|
Single-molecule direct RNA sequencing reveals the shaping of epitranscriptome across multiple species
|
1.00 |
|
Divergent combinations of enhancers encode spatial gene expression
|
1.00 |
|
A naturally occurring SNP modulates thermotolerance divergence among grapevines
|
0.94 |
|
Charting unknown metabolic reactions by mass spectrometry-resolved stable-isotope tracing metabolomics
|
1.00 |
|
Single-cell and spatial transcriptome analyses reveal tumor heterogeneity and immune remodeling involved in pituitary neuroendocrine tumor progression
|
1.00 |
|
Pangenome analysis reveals yield- and fiber-related diversity and interspecific gene flow in Gossypium barbadense L.
|
0.86 |
|
Reveal genomic insights into cotton domestication and improvement using gene level functional haplotype-based GWAS
|
1.00 |
|
SKSR1 identified as key virulence factor in Cryptosporidium by genetic crossing
|
0.92 |
|
CellFM: a large-scale foundation model pre-trained on transcriptomics of 100 million human cells
|
1.00 |
|
STP: single-cell partition for subcellular spatially-resolved transcriptomics
|
0.67 |
|
Chromosome fusions shaped karyotype evolution and evolutionary relationships in the model family Brassicaceae
|
0.80 |
|
Auricular malformations are driven by copy number variations in a hierarchical enhancer cluster and a dominant enhancer recapitulates human pathogenesis
|
0.92 |
|
CREATE: cell-type-specific cis-regulatory element identification via discrete embedding
|
0.80 |
|
LipidIN: a comprehensive repository for flash platform-independent annotation and reverse lipidomics
|
1.00 |
|
FABP4 inhibition suppresses bone resorption and protects against postmenopausal osteoporosis in ovariectomized mice
|
1.00 |
|
scMINER: a mutual information-based framework for clustering and hidden driver inference from single-cell transcriptomics data
|
0.06 |
|
Restoring flowcell type and basecaller configuration from FASTQ files of nanopore sequencing data
|
1.00 |
|
De novo non-canonical nanopore basecalling enables private communication using heavily-modified DNA data at single-molecule level
|
1.00 |