[
 {
  "pmid": "42821046",
  "doi": "10.1007/s10067-026-08438-8",
  "title": "Mendelian randomization and single-cell transcriptomics prioritize CD7 and LAPTM5 in primary Sjögren's disease: an integrative multi-omics analysis.",
  "journal": "Clinical rheumatology",
  "published": "2026-Sep-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42821046/"
 },
 {
  "pmid": "42815472",
  "doi": "10.1016/j.crmeth.2026.101612",
  "title": "stFormer integrates spatial ligand signaling into a foundation model for spatial transcriptomics.",
  "journal": "Cell reports methods",
  "published": "2026-Sep-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42815472/"
 },
 {
  "pmid": "42815804",
  "doi": "10.1016/j.mimet.2026.107728",
  "title": "Ozone disinfection effectively reduces pathogenic microbial nucleic acid background in mNGS laboratories.",
  "journal": "Journal of microbiological methods",
  "published": "2026-Sep-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42815804/"
 },
 {
  "pmid": "42816602",
  "doi": "10.1038/s41588-026-02756-y",
  "title": "ArchMap is a web-based platform for reference-based analysis of single-cell datasets.",
  "journal": "Nature genetics",
  "published": "2026-Sep-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42816602/"
 },
 {
  "pmid": "42730994",
  "doi": "10.1096/fj.202602273R",
  "title": "Identifying JAK2 and ANXA5 as Key Genes Linking Obstructive Sleep Apnea and Oxidative Stress via Machine Learning and Multilayer Transcriptomic Integration With Functional Validation.",
  "journal": "FASEB journal : official publication of the Federation of American Societies for Experimental Biology",
  "published": "2026-Sep-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42730994/"
 },
 {
  "pmid": "42762061",
  "doi": "10.1096/fj.202603735R",
  "title": "Single-Cell RNA Sequencing-Based Identification of Novel Podocyte Injury-Associated Genes From Isolated Glomeruli of Diabetic db/db Mice.",
  "journal": "FASEB journal : official publication of the Federation of American Societies for Experimental Biology",
  "published": "2026-Sep-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42762061/"
 },
 {
  "pmid": "42811237",
  "doi": "10.1007/7651_2026_717",
  "title": "Quantitative Single-Cell Time-Lapse Phase-Contrast Microscopy with DeepSea.",
  "journal": "Methods in molecular biology (Clifton, N.J.)",
  "published": "2026-Sep-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42811237/"
 },
 {
  "pmid": "42813985",
  "doi": "10.1093/molecular-omics/aaiag023",
  "title": "Reference-Based Cell Type Deconvolution Using Self-Supervised Contrastive Learning in Spatial Transcriptomics with Ctdecon.",
  "journal": "Molecular omics",
  "published": "2026-Sep-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42813985/"
 },
 {
  "pmid": "42814042",
  "doi": "10.1002/smll.76083",
  "title": "Patterning of Artificial Cell Populations Via Laser Induced Forward Transfer for Controlled and Localized Cargo Uptake and Release.",
  "journal": "Small (Weinheim an der Bergstrasse, Germany)",
  "published": "2026-Sep-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42814042/"
 },
 {
  "pmid": "42826575",
  "doi": "10.1016/j.compbiolchem.2026.109448",
  "title": "AI-driven transcriptomics for neurodegenerative disease research: A systematic review.",
  "journal": "Computational biology and chemistry",
  "published": "2026-Sep-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42826575/"
 },
 {
  "pmid": "42809244",
  "doi": "10.1093/bioinformatics/btag726",
  "title": "CSGDA: A Cell State-Guided Graph Domain Adaptation Network for Single-Cell Drug Response Prediction.",
  "journal": "Bioinformatics (Oxford, England)",
  "published": "2026-Sep-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42809244/"
 },
 {
  "pmid": "42809384",
  "doi": "10.1093/jambio/lxag239",
  "title": "AI-Empowered Viral Metagenomics for Clinical Diagnosis: Advances, Bottlenecks, and Translational Pathways.",
  "journal": "Journal of applied microbiology",
  "published": "2026-Sep-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42809384/"
 },
 {
  "pmid": "42809409",
  "doi": "10.1177/15578666261492321",
  "title": "Integrating Morphology and Gene Expression of Neural Cells in Unpaired Single-Cell Data Using GeoAdvAE.",
  "journal": "Journal of computational biology : a journal of computational molecular cell biology",
  "published": "2026-Sep-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42809409/"
 },
 {
  "pmid": "42810347",
  "doi": "10.1016/j.neuron.2026.09.007",
  "title": "OpenFISH enables same-section spatial transcriptomics and MALDI-MSI integration.",
  "journal": "Neuron",
  "published": "2026-Sep-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42810347/"
 },
 {
  "pmid": "42811202",
  "doi": "10.1093/bioinformatics/btag728",
  "title": "PRISM-GEP: Viewing Single-Cell Expression through the Lens of Topic Modeling.",
  "journal": "Bioinformatics (Oxford, England)",
  "published": "2026-Sep-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42811202/"
 },
 {
  "pmid": "42818106",
  "doi": "10.64898/2026.09.25.754560",
  "title": "Pop-Corn: Predicting Perturbation Phenotype Effects Across Single-Cell and Spatial Contexts.",
  "journal": "bioRxiv : the preprint server for biology",
  "published": "2026-Sep-26",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42818106/"
 },
 {
  "pmid": "42817973",
  "doi": "10.64898/2026.09.22.752944",
  "title": "Streamlined Production of Recombinant Adeno-Associated Viruses Using Gateway Cloning Technology for Neural Circuit All-Optical Interrogation.",
  "journal": "bioRxiv : the preprint server for biology",
  "published": "2026-Sep-25",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42817973/"
 },
 {
  "pmid": "42818234",
  "doi": "10.64898/2026.09.21.753266",
  "title": "Diverse genome organization strategies for polysaccharide utilization in the oceans.",
  "journal": "bioRxiv : the preprint server for biology",
  "published": "2026-Sep-25",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42818234/"
 },
 {
  "pmid": "42818076",
  "doi": "10.64898/2026.09.17.751504",
  "title": "Extracting interpretable single-cell metabolic states with graph-guided representation learning.",
  "journal": "bioRxiv : the preprint server for biology",
  "published": "2026-Sep-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42818076/"
 },
 {
  "pmid": "42818146",
  "doi": "10.64898/2026.09.17.752512",
  "title": "Lossless compression of protein databases for efficient and accurate metagenomic sequence classification with Centrifuger.",
  "journal": "bioRxiv : the preprint server for biology",
  "published": "2026-Sep-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42818146/"
 },
 {
  "pmid": "42818531",
  "doi": "",
  "title": "Phylodynamic inference with the bounded coalescent: a point process perspective.",
  "journal": "ArXiv",
  "published": "2026-Sep-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42818531/"
 },
 {
  "pmid": "42962034",
  "doi": "10.1126/sciadv.aee7939",
  "title": "Evidence of active whole-genome doubling (WGD) subclones in non-WGD tumors.",
  "journal": "Science advances",
  "published": "2026-Oct-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42962034/"
 },
 {
  "pmid": "42962077",
  "doi": "10.1111/1348-0421.70101",
  "title": "Andrographolide Combined With Voriconazole Enhances Antifungal Activity Against Aspergillus Species.",
  "journal": "Microbiology and immunology",
  "published": "2026-Oct-30",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42962077/"
 },
 {
  "pmid": "42956748",
  "doi": "10.1016/j.cels.2026.101762",
  "title": "Categorization and analysis of 16 computational methods for estimating cell potency from single-cell RNA-seq data.",
  "journal": "Cell systems",
  "published": "2026-Oct-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42956748/"
 },
 {
  "pmid": "42957759",
  "doi": "10.1038/s42003-026-10750-7",
  "title": "Microbiology Galaxy Lab: a community-driven gateway for reproducible and FAIR analysis of microbiological data.",
  "journal": "Communications biology",
  "published": "2026-Oct-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42957759/"
 },
 {
  "pmid": "42952401",
  "doi": "10.1093/nar/gkag1063",
  "title": "scMRdb: a comprehensive resource for cell-type-resolved Mendelian randomization of complex traits.",
  "journal": "Nucleic acids research",
  "published": "2026-Oct-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42952401/"
 },
 {
  "pmid": "42955413",
  "doi": "10.1007/s10142-026-02091-9",
  "title": "BILBO: a self-hosted platform for large-scale RNA-Seq analysis with a functional annotation clustering framework.",
  "journal": "Functional & integrative genomics",
  "published": "2026-Oct-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42955413/"
 },
 {
  "pmid": "42956103",
  "doi": "10.1371/journal.pcbi.1014898",
  "title": "From 16S rDNA-seq count data to microbial interactions: A comprehensive benchmark of co-occurrence network inference methods.",
  "journal": "PLoS computational biology",
  "published": "2026-Oct-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42956103/"
 },
 {
  "pmid": "42557881",
  "doi": "10.1093/aob/mcag241",
  "title": "scLncR: an integrated and flexible pipeline for lncRNA analysis in single-cell RNA sequencing data.",
  "journal": "Annals of botany",
  "published": "2026-Oct-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42557881/"
 },
 {
  "pmid": "42948897",
  "doi": "10.1093/molbev/msag271",
  "title": "scEvoSel maps evolutionary selection signals onto single-cell transcriptomic atlases to reveal selection-relevant cellular contexts.",
  "journal": "Molecular biology and evolution",
  "published": "2026-Oct-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42948897/"
 },
 {
  "pmid": "42949508",
  "doi": "10.1111/eos.70157",
  "title": "Time-to-transformation transcriptomic modeling identifies oral squamous cell carcinoma-initiation and SPP1-integrin niche programs in oral leukoplakia.",
  "journal": "European journal of oral sciences",
  "published": "2026-Oct-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42949508/"
 },
 {
  "pmid": "42949909",
  "doi": "10.1093/bioinformatics/btag801",
  "title": "Starlng: STability Analysis of coReguLated \"Nests\" of Genes.",
  "journal": "Bioinformatics (Oxford, England)",
  "published": "2026-Oct-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42949909/"
 },
 {
  "pmid": "42950828",
  "doi": "10.1016/j.cels.2026.101759",
  "title": "Deep Lineage: Single-cell lineage tracing and fate inference using deep learning.",
  "journal": "Cell systems",
  "published": "2026-Oct-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42950828/"
 },
 {
  "pmid": "42951973",
  "doi": "10.1038/s41586-026-10721-2",
  "title": "Rare and common genetic variants shape single-cell immune gene expression.",
  "journal": "Nature",
  "published": "2026-Oct-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42951973/"
 },
 {
  "pmid": "42946114",
  "doi": "10.1016/j.exer.2026.111295",
  "title": "The Mouse Retina as an Evolving Model System: From Layered Anatomy to Cell-Type-Resolved Regenerative Repair.",
  "journal": "Experimental eye research",
  "published": "2026-Oct-27",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42946114/"
 },
 {
  "pmid": "42949163",
  "doi": "10.3791/74474",
  "title": "Isolation of Ventricular Cardiomyocytes from the Annual Killifish Nothobranchius furzeri for Whole-Cell Patch Clamp Recordings.",
  "journal": "Journal of visualized experiments : JoVE",
  "published": "2026-Oct-27",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42949163/"
 },
 {
  "pmid": "42934226",
  "doi": "10.1038/s41421-026-00928-y",
  "title": "A droplet-based long-read single-cell epigenome sequencing method for the high-throughput profiling of multidimensional regulatory elements within individual cells.",
  "journal": "Cell discovery",
  "published": "2026-Oct-27",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42934226/"
 },
 {
  "pmid": "42935241",
  "doi": "10.1093/nar/gkag1040",
  "title": "CellMarker 3.0: an updated resource of manually curated and computationally predicted cell markers in human/mouse and interactive web tools for single-cell and spatial transcriptomics analysis.",
  "journal": "Nucleic acids research",
  "published": "2026-Oct-27",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42935241/"
 },
 {
  "pmid": "42953662",
  "doi": "10.1021/cbmi.6c00070",
  "title": "MeXpose 2.0: A Comprehensive Toolkit for Single-Cell Spatial (Metall-)omicsCovering All Steps from Image Reconstruction to Integrative Analysis.",
  "journal": "Chemical & biomedical imaging",
  "published": "2026-Oct-26",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42953662/"
 },
 {
  "pmid": "42933984",
  "doi": "10.1101/gr.282190.126",
  "title": "Integration-free and cluster-free detection of localized differential gene coexpression in single-cell data with DiCoLo.",
  "journal": "Genome research",
  "published": "2026-Oct-26",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42933984/"
 },
 {
  "pmid": "42953962",
  "doi": "10.1093/nar/gkag995",
  "title": "Exploring DNA movement through the application of droplet-based high-efficiency chromatin conformation capture (DropHiChew) and loop velocity.",
  "journal": "Nucleic acids research",
  "published": "2026-Oct-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42953962/"
 },
 {
  "pmid": "42926093",
  "doi": "10.1016/j.envpol.2026.129378",
  "title": "Source Apportionment and Resistome Signatures of Community and Hospital Effluents in Urban Sewer Networks.",
  "journal": "Environmental pollution (Barking, Essex : 1987)",
  "published": "2026-Oct-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42926093/"
 },
 {
  "pmid": "42919619",
  "doi": "10.1136/rmdopen-2026-007291",
  "title": "Synovial fluid cell isolation protocol affects immune cell recovery and composition across inflammatory states.",
  "journal": "RMD open",
  "published": "2026-Oct-23",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42919619/"
 },
 {
  "pmid": "42925575",
  "doi": "10.1016/j.psyneuen.2026.108061",
  "title": "Multi-layer analysis of gut metagenomic functional potential in major depressive disorder.",
  "journal": "Psychoneuroendocrinology",
  "published": "2026-Oct-23",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42925575/"
 },
 {
  "pmid": "42913020",
  "doi": "10.1126/sciadv.aef2844",
  "title": "High-throughput droplet-based enzymatic DNA methylome profiling enables single-cell resolution of epigenetic heterogeneity.",
  "journal": "Science advances",
  "published": "2026-Oct-23",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42913020/"
 },
 {
  "pmid": "42913931",
  "doi": "10.1016/j.exer.2026.111289",
  "title": "Identification of key cell subpopulations and associated biomarkers for mouse dry eye disease based on the Scissor-CIBERSORTx algorithm integration strategy.",
  "journal": "Experimental eye research",
  "published": "2026-Oct-23",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42913931/"
 },
 {
  "pmid": "42918896",
  "doi": "10.1007/s10142-026-02087-5",
  "title": "scHGNN: A single-cell gene regulatory network inference method based on heuristic graph neural networks.",
  "journal": "Functional & integrative genomics",
  "published": "2026-Oct-23",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42918896/"
 },
 {
  "pmid": "42918922",
  "doi": "10.1007/s10096-026-05701-3",
  "title": "Diagnostic accuracy and clinical considerations of metagenomic next-generation sequencing in prosthetic joint infection: a systematic review and meta-analysis.",
  "journal": "European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology",
  "published": "2026-Oct-23",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42918922/"
 },
 {
  "pmid": "42910946",
  "doi": "10.1128/mbio.01572-26",
  "title": "TriLock-FISH enables in situ discrimination of influenza cRNA and mRNA for single-cell analysis of viral replication and transcription.",
  "journal": "mBio",
  "published": "2026-Oct-22",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42910946/"
 },
 {
  "pmid": "42914062",
  "doi": "10.1016/j.bbadis.2026.168507",
  "title": "Single-cell and multi-algorithm profiling identifies SNRPG as a Claudin-1-associated regulator of malignant progression in triple-negative breast cancer.",
  "journal": "Biochimica et biophysica acta. Molecular basis of disease",
  "published": "2026-Oct-22",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42914062/"
 },
 {
  "pmid": "42918851",
  "doi": "10.1038/s41592-026-03262-z",
  "title": "OpenDVP: an experimental and computational framework for community-empowered deep visual proteomics.",
  "journal": "Nature methods",
  "published": "2026-Oct-22",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42918851/"
 },
 {
  "pmid": "42941277",
  "doi": "10.3390/metabo16100802",
  "title": "Shenqi Granules Ameliorate Cerebral Ischemia-Reperfusion Injury by Regulating Glucocerebrosidase and Uridine Metabolism in Microglia.",
  "journal": "Metabolites",
  "published": "2026-Oct-21",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42941277/"
 },
 {
  "pmid": "42942149",
  "doi": "10.3390/ijms27209382",
  "title": "CCCView: A Knowledge Platform for Integrated Analysis of Spatial Transcriptomic Cell-Cell Communication.",
  "journal": "International journal of molecular sciences",
  "published": "2026-Oct-21",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42942149/"
 },
 {
  "pmid": "42242218",
  "doi": "10.1016/j.neuron.2026.05.005",
  "title": "POINTseq: Cell-type-specific barcoding reveals single-cell projection architecture of the mouse dopaminergic system.",
  "journal": "Neuron",
  "published": "2026-Oct-21",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42242218/"
 },
 {
  "pmid": "42905585",
  "doi": "10.1109/TCBBIO.2026.3745540",
  "title": "HetAnn: Cell Type Annotation for Spatial Transcriptomics by Heterogeneous Graph Learning.",
  "journal": "IEEE transactions on computational biology and bioinformatics",
  "published": "2026-Oct-21",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42905585/"
 },
 {
  "pmid": "42907469",
  "doi": "10.1038/s41467-026-78596-5",
  "title": "High-content morphological profiling by Cell Painting in 3D spheroids.",
  "journal": "Nature communications",
  "published": "2026-Oct-21",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42907469/"
 },
 {
  "pmid": "42938252",
  "doi": "10.3390/diagnostics16203413",
  "title": "Multi-Platform Transcriptomic Classification of LUAD Driver Mutation Subtypes via Heterogeneous Ensemble Learning.",
  "journal": "Diagnostics (Basel, Switzerland)",
  "published": "2026-Oct-20",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42938252/"
 },
 {
  "pmid": "42242331",
  "doi": "10.1016/j.gene.2026.150259",
  "title": "Single-cell-based analysis establishes C1QA-mediated promotion of high glucose-induced tubular epithelial injury via ERS in DN.",
  "journal": "Gene",
  "published": "2026-Oct-20",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42242331/"
 },
 {
  "pmid": "42899409",
  "doi": "10.1093/bioinformatics/btag751",
  "title": "Integration of polygenic risk with single cell methylation data using met-scDRS.",
  "journal": "Bioinformatics (Oxford, England)",
  "published": "2026-Oct-20",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42899409/"
 },
 {
  "pmid": "42900454",
  "doi": "10.1186/s40643-026-01135-z",
  "title": "CYP1B1 is a potential target of kaempferol in renal fibrosis: a multi‑omics and single‑cell transcriptomics study.",
  "journal": "Bioresources and bioprocessing",
  "published": "2026-Oct-20",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42900454/"
 },
 {
  "pmid": "42900792",
  "doi": "10.1002/pros.70262",
  "title": "Identification of Novel CD52+ Fibroblasts in Nodular Prostatic Hyperplasia.",
  "journal": "The Prostate",
  "published": "2026-Oct-20",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42900792/"
 },
 {
  "pmid": "42532048",
  "doi": "10.1016/j.crmeth.2026.101541",
  "title": "Rapid and reversible regulation of cell cycle progression in budding yeast using optogenetics.",
  "journal": "Cell reports methods",
  "published": "2026-Oct-19",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42532048/"
 },
 {
  "pmid": "42600616",
  "doi": "10.1016/j.crmeth.2026.101552",
  "title": "A sensitive method for profiling cell-type-specific secretomes of rare cells from complex tissues.",
  "journal": "Cell reports methods",
  "published": "2026-Oct-19",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42600616/"
 },
 {
  "pmid": "42897202",
  "doi": "10.1038/s41564-026-02453-w",
  "title": "Disentangling microbiota-dependent and -independent impacts of antibiotics on host physiology.",
  "journal": "Nature microbiology",
  "published": "2026-Oct-19",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42897202/"
 },
 {
  "pmid": "42897688",
  "doi": "10.1186/s44342-026-00084-5",
  "title": "Recovering CDR3 sequences from RNA-seq data: a critical assessment of computational and experimental strategies.",
  "journal": "Genomics & informatics",
  "published": "2026-Oct-19",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42897688/"
 },
 {
  "pmid": "42898834",
  "doi": "10.1039/d6md00532b",
  "title": "Pan-cancer analysis reveals DNAJC9 as an immune-related biomarker and a positive regulator of the PI3K/AKT signaling pathway.",
  "journal": "RSC medicinal chemistry",
  "published": "2026-Oct-19",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42898834/"
 },
 {
  "pmid": "42895354",
  "doi": "10.1128/spectrum.00712-26",
  "title": "An optimized flow cytometry sorting-sequencing workflow reduces storage, sorting, and extraction bias in sorted microbial communities.",
  "journal": "Microbiology spectrum",
  "published": "2026-Oct-19",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42895354/"
 },
 {
  "pmid": "42893622",
  "doi": "10.1139/gen-2026-0094",
  "title": "Feature selection and dimensionality reduction in multi-omics.",
  "journal": "Genome",
  "published": "2026-Oct-18",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42893622/"
 },
 {
  "pmid": "42897451",
  "doi": "10.1186/s12864-026-13475-3",
  "title": "Decoding radiation-induced transcriptomic signatures of human leukocytes using long-read RNA-seq: clinical and biodosimetric implications.",
  "journal": "BMC genomics",
  "published": "2026-Oct-17",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42897451/"
 },
 {
  "pmid": "42892321",
  "doi": "10.1016/j.jmoldx.2026.09.003",
  "title": "Optimizing Pathogen Detection in Clinical Metagenomics: A Comprehensive Benchmarking of Bioinformatic Pipelines for Single-End Short Reads.",
  "journal": "The Journal of molecular diagnostics : JMD",
  "published": "2026-Oct-17",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42892321/"
 },
 {
  "pmid": "42891611",
  "doi": "10.3791/73852",
  "title": "Single-Cell Detection and Quantification of Metabolically Active Bacteria in Soil Using Heavy-Water Labeling and Raman Microspectroscopy.",
  "journal": "Journal of visualized experiments : JoVE",
  "published": "2026-Oct-16",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42891611/"
 },
 {
  "pmid": "42891637",
  "doi": "10.3791/73625",
  "title": "Enrichment of Retinal Endothelial Cells and Müller Glia Enable Comprehensive scRNA-Seq Profiling of the Blood-Retinal Barrier.",
  "journal": "Journal of visualized experiments : JoVE",
  "published": "2026-Oct-16",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42891637/"
 },
 {
  "pmid": "42886518",
  "doi": "10.1093/bioinformatics/btag782",
  "title": "DNAharvester: A Nextflow Pipeline for Analysing Highly Degraded DNA from Ancient and Historical Specimens.",
  "journal": "Bioinformatics (Oxford, England)",
  "published": "2026-Oct-16",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42886518/"
 },
 {
  "pmid": "42886592",
  "doi": "10.1109/TCBBIO.2026.3740828",
  "title": "Inferring gene regulatory networks from single-cell transcriptomics jointly through graph neural networks and Transformer.",
  "journal": "IEEE transactions on computational biology and bioinformatics",
  "published": "2026-Oct-16",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42886592/"
 },
 {
  "pmid": "42886762",
  "doi": "10.1371/journal.pcbi.1014862",
  "title": "Computational deconvolution of drug sensitivity via single-cell-to-bulk transcriptome mapping.",
  "journal": "PLoS computational biology",
  "published": "2026-Oct-16",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42886762/"
 },
 {
  "pmid": "42774740",
  "doi": "10.1016/j.isci.2026.117564",
  "title": "Benchmarking immunoinformatic repertoire assemblies from bulk RNA-seq and PCR-based V(D)J sequencing using PCR-free SMRT RNA sequencing.",
  "journal": "iScience",
  "published": "2026-Oct-16",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42774740/"
 },
 {
  "pmid": "42828099",
  "doi": "10.1016/j.isci.2026.117596",
  "title": "Sequencing the wastewater virome: Current strategies and bioinformatic pitfalls.",
  "journal": "iScience",
  "published": "2026-Oct-16",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42828099/"
 },
 {
  "pmid": "42341634",
  "doi": "10.1016/j.theriogenology.2026.118049",
  "title": "How to dissociate porcine ovaries: towards efficient retrieval of putative female germline stem cells.",
  "journal": "Theriogenology",
  "published": "2026-Oct-15",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42341634/"
 },
 {
  "pmid": "42462956",
  "doi": "10.1016/j.envpol.2026.128797",
  "title": "Adaptation and application of the Comet Assay to genotoxicity assessments in elasmobranchs.",
  "journal": "Environmental pollution (Barking, Essex : 1987)",
  "published": "2026-Oct-15",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42462956/"
 },
 {
  "pmid": "42492212",
  "doi": "10.1016/j.watres.2026.126548",
  "title": "Integrating multi-method approach reveals extensive antibiotic resistance dissemination from concentrated animal feeding operations to surface waters.",
  "journal": "Water research",
  "published": "2026-Oct-15",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42492212/"
 },
 {
  "pmid": "42531606",
  "doi": "10.1158/0008-5472.CAN-25-4102",
  "title": "CDState Resolves Malignant Cell Heterogeneity from Bulk Tumor RNA Sequencing Data.",
  "journal": "Cancer research",
  "published": "2026-Oct-15",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42531606/"
 },
 {
  "pmid": "42727446",
  "doi": "10.1016/j.bioorg.2026.110474",
  "title": "Efficacy of icariin in polycystic ovary syndrome: Cathepsin S as a key target revealed by computational and experimental evidence.",
  "journal": "Bioorganic chemistry",
  "published": "2026-Oct-15",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42727446/"
 },
 {
  "pmid": "42872551",
  "doi": "10.1021/acsami.6c13330",
  "title": "DNA-Modified Nanowire Thermometer Uncovers Thermal Responses of Neuronal Soma and Neurites to H2O2 Treatment.",
  "journal": "ACS applied materials & interfaces",
  "published": "2026-Oct-15",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42872551/"
 },
 {
  "pmid": "42874800",
  "doi": "10.1016/j.jtct.2026.10.016",
  "title": "A stem cell-based flow cytometry assay to predict post-transplantation relapse in patients with myelodysplastic syndromes with excess blasts: a prospective study.",
  "journal": "Transplantation and cellular therapy",
  "published": "2026-Oct-14",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42874800/"
 },
 {
  "pmid": "42875562",
  "doi": "10.1038/s41551-026-01800-w",
  "title": "SpatialZoomer: multi-scale feature analysis of spatial transcriptomics.",
  "journal": "Nature biomedical engineering",
  "published": "2026-Oct-14",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42875562/"
 },
 {
  "pmid": "42875679",
  "doi": "10.1002/advs.78144",
  "title": "Oral Actinomyces Species Exposure is Associated with Anxiety-Like Behavior, Mitochondrial Remodeling, and Altered GABAergic Pathways.",
  "journal": "Advanced science (Weinheim, Baden-Wurttemberg, Germany)",
  "published": "2026-Oct-14",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42875679/"
 },
 {
  "pmid": "42875723",
  "doi": "10.1007/s10620-026-10270-8",
  "title": "Animal Models of Slow-Transit Constipation: Current Progress, Limitations, and Future Perspectives.",
  "journal": "Digestive diseases and sciences",
  "published": "2026-Oct-14",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42875723/"
 },
 {
  "pmid": "42875726",
  "doi": "10.1002/advs.78197",
  "title": "CausalCellInfer: Prioritizing Cell-Type-Specific Disease Associations From Genetically Predicted Transcriptomes in Biobank Cohorts.",
  "journal": "Advanced science (Weinheim, Baden-Wurttemberg, Germany)",
  "published": "2026-Oct-14",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42875726/"
 },
 {
  "pmid": "42873629",
  "doi": "10.1109/TCBBIO.2026.3743566",
  "title": "Hypergraph-Enhanced Self-Supervised Learning with Module-Aware Structured Masking for Single-Cell Transcriptomic Clustering.",
  "journal": "IEEE transactions on computational biology and bioinformatics",
  "published": "2026-Oct-14",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42873629/"
 },
 {
  "pmid": "42873966",
  "doi": "10.1080/09553002.2026.2713037",
  "title": "Vortex beam-based Raman spectroscopic single cell analysis of radiation-induced biochemical changes in human erythrocytes for radiation biodosimetry.",
  "journal": "International journal of radiation biology",
  "published": "2026-Oct-14",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42873966/"
 },
 {
  "pmid": "42890061",
  "doi": "10.1021/acsomega.6c07541",
  "title": "High-Performing Unitized Regenerative Fuel Cell Using PGM-Free Bifunctional Catalysts from Waste-Derived Carbon.",
  "journal": "ACS omega",
  "published": "2026-Oct-13",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42890061/"
 },
 {
  "pmid": "42890087",
  "doi": "10.1021/acsomega.6c05674",
  "title": "Series-Parallel Testing of Laboratory Lithium-Ion Cells: Not All Coin Cells Are Created Equal.",
  "journal": "ACS omega",
  "published": "2026-Oct-13",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42890087/"
 },
 {
  "pmid": "42892166",
  "doi": "10.1016/j.compbiolchem.2026.109495",
  "title": "Deploying machine learning and metagenomics for predicting gut microbial drug biotransformation in colorectal cancer.",
  "journal": "Computational biology and chemistry",
  "published": "2026-Oct-13",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42892166/"
 },
 {
  "pmid": "42869192",
  "doi": "10.1016/j.biortech.2026.136047",
  "title": "Single-cell elemental analysis of Limnospira platensis and Chlorella vulgaris using novel downward-pointing inductively coupled plasma time-of-flight mass spectrometry with emphasis on iron bioaccumulation.",
  "journal": "Bioresource technology",
  "published": "2026-Oct-13",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42869192/"
 },
 {
  "pmid": "42870190",
  "doi": "10.1007/s12539-026-00884-x",
  "title": "scDGCN: A Graph-Based Deep Clustering Framework for Single-Cell Transcriptomics via Neighborhood-Enhanced Context Representation Learning.",
  "journal": "Interdisciplinary sciences, computational life sciences",
  "published": "2026-Oct-13",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42870190/"
 },
 {
  "pmid": "42870288",
  "doi": "10.1186/s42523-026-00567-4",
  "title": "Optimized approaches to profile low biomass DNA and RNA virome in the upper respiratory tract of beef cattle.",
  "journal": "Animal microbiome",
  "published": "2026-Oct-13",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42870288/"
 },
 {
  "pmid": "42866952",
  "doi": "10.1093/nar/gkag975",
  "title": "Fast, flexible gene cluster family delineation with IGUA.",
  "journal": "Nucleic acids research",
  "published": "2026-Oct-13",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42866952/"
 },
 {
  "pmid": "42867153",
  "doi": "10.1093/bioinformatics/btag730",
  "title": "Seumetry: a versatile and comprehensive R toolkit to accelerate high-dimensional flow and mass cytometry data analysis.",
  "journal": "Bioinformatics (Oxford, England)",
  "published": "2026-Oct-13",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42867153/"
 },
 {
  "pmid": "42886441",
  "doi": "10.1007/s11427-025-3406-3",
  "title": "DESIGN: a framework for generative AI-enabled crop molecular design-driven breeding.",
  "journal": "Science China. Life sciences",
  "published": "2026-Oct-12",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42886441/"
 },
 {
  "pmid": "42872669",
  "doi": "10.2174/0115680096497180260909094944",
  "title": "Single-Cell Transcriptomics Identifies Fibroblast-Associated Transcriptional Patterns and Candidate Therapeutic Targets in the Comorbidity of Non-Small Cell Lung Cancer and Obesity.",
  "journal": "Current cancer drug targets",
  "published": "2026-Oct-12",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42872669/"
 },
 {
  "pmid": "42863279",
  "doi": "10.1016/j.compbiomed.2026.111978",
  "title": "Patch-based querying identifies structures of interest in electron microscopy.",
  "journal": "Computers in biology and medicine",
  "published": "2026-Oct-12",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42863279/"
 },
 {
  "pmid": "42864526",
  "doi": "10.1007/s00402-026-06505-y",
  "title": "The boundary between microbial detection and implant-related infection: a structured narrative review of analytical credibility, biological persistence, host response, and clinical causality.",
  "journal": "Archives of orthopaedic and trauma surgery",
  "published": "2026-Oct-12",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42864526/"
 },
 {
  "pmid": "42865011",
  "doi": "10.1093/bioinformatics/btag761",
  "title": "FAMUS: A Few-Shot Learning Framework for Large-Scale Protein Annotation.",
  "journal": "Bioinformatics (Oxford, England)",
  "published": "2026-Oct-12",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42865011/"
 },
 {
  "pmid": "42861963",
  "doi": "10.1128/msystems.00901-26",
  "title": "A global atlas of the gut virome reveals subtype-specific and functional alterations in irritable bowel syndrome.",
  "journal": "mSystems",
  "published": "2026-Oct-12",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42861963/"
 },
 {
  "pmid": "42861989",
  "doi": "10.1128/msystems.00837-26",
  "title": "Association of quantitative sputum Candida load with respiratory dysbiosis and airway inflammation in suspected invasive pulmonary candidiasis.",
  "journal": "mSystems",
  "published": "2026-Oct-12",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42861989/"
 },
 {
  "pmid": "42862771",
  "doi": "10.1159/drm/ackag029",
  "title": "Deciphering the crosstalk between cancer stemness and the immune microenvironment in melanoma: a single-cell transcriptomic analysis.",
  "journal": "Dermatology (Basel, Switzerland)",
  "published": "2026-Oct-12",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42862771/"
 },
 {
  "pmid": "42860219",
  "doi": "10.1016/j.parint.2026.103406",
  "title": "The gene expression signature of multinucleated giant cells in the spleens of Leishmania donovani-infected mice.",
  "journal": "Parasitology international",
  "published": "2026-Oct-11",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42860219/"
 },
 {
  "pmid": "42860608",
  "doi": "10.1002/advs.78213",
  "title": "One-Step Induction of Oogonia-Like and Pro-Spermatogonia-Like Cells From Porcine Pluripotent Stem Cells.",
  "journal": "Advanced science (Weinheim, Baden-Wurttemberg, Germany)",
  "published": "2026-Oct-11",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42860608/"
 },
 {
  "pmid": "42887455",
  "doi": "10.1016/j.jneuroim.2026.579105",
  "title": "Reassessment of a four-gene NK-cell-lineage-associated prognostic score in histologically defined grade 3 glioma.",
  "journal": "Journal of neuroimmunology",
  "published": "2026-Oct-10",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42887455/"
 },
 {
  "pmid": "42413813",
  "doi": "10.1016/j.canlet.2026.218716",
  "title": "GliomaDeconv maps glioma-specific cellular programs from bulk transcriptomic profiles and reveals spatiotemporal associations with progression and treatment response.",
  "journal": "Cancer letters",
  "published": "2026-Oct-10",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42413813/"
 },
 {
  "pmid": "42864608",
  "doi": "10.1186/s12864-026-13418-y",
  "title": "ERMA: a harmonizing epicPCR data analysis tool.",
  "journal": "BMC genomics",
  "published": "2026-Oct-09",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42864608/"
 },
 {
  "pmid": "42854686",
  "doi": "10.1016/j.cell.2026.09.017",
  "title": "Mapping transcriptional responses to cellular perturbations with RNA fingerprinting.",
  "journal": "Cell",
  "published": "2026-Oct-09",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42854686/"
 },
 {
  "pmid": "42855278",
  "doi": "10.1101/gr.281292.125",
  "title": "Single-cell transcriptome analysis reveals onco-fetal reprogramming with implications for drug resistance and clinical outcome.",
  "journal": "Genome research",
  "published": "2026-Oct-09",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42855278/"
 },
 {
  "pmid": "42855280",
  "doi": "10.1101/gr.281566.125",
  "title": "Protein large language model-assisted one-to-one gene homology mapping in cross-species single-cell transcriptome integration.",
  "journal": "Genome research",
  "published": "2026-Oct-09",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42855280/"
 },
 {
  "pmid": "42852904",
  "doi": "10.1128/msystems.00444-26",
  "title": "Comparative performance of reference-based metagenomic tools to identify species-level taxa among families of bacteria: benchmarking Mycobacteriaceae and Neisseriaceae.",
  "journal": "mSystems",
  "published": "2026-Oct-09",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42852904/"
 },
 {
  "pmid": "42853343",
  "doi": "10.1186/s13619-026-00300-1",
  "title": "The generation and characterization of CTRP9-CreERT2 knock-in mice for targeting endothelial cell muscle and adipose tissues.",
  "journal": "Cell regeneration (London, England)",
  "published": "2026-Oct-09",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42853343/"
 },
 {
  "pmid": "42853389",
  "doi": "10.1007/s00216-026-06866-8",
  "title": "Nonenzymatic detection and imaging of m6A-methylated RNA via proximity hybridization-initiated hybridization chain reaction with site-specific recognition.",
  "journal": "Analytical and bioanalytical chemistry",
  "published": "2026-Oct-09",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42853389/"
 },
 {
  "pmid": "42853736",
  "doi": "10.1109/TCBBIO.2026.3742164",
  "title": "scHCL-SDA: A Homophily-Aware Contrastive Learning with Spectral Distribution Alignment for scRNA-seq Data Clustering.",
  "journal": "IEEE transactions on computational biology and bioinformatics",
  "published": "2026-Oct-09",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42853736/"
 },
 {
  "pmid": "42842680",
  "doi": "10.1126/sciadv.aeg9610",
  "title": "Translocation-induced enhancer rewiring reveals cryptic oncogenic circuits in multiple myeloma.",
  "journal": "Science advances",
  "published": "2026-Oct-09",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42842680/"
 },
 {
  "pmid": "42847688",
  "doi": "10.1128/msystems.00803-26",
  "title": "Integrated multi-omics and metabolic modeling links structure to function in high-performing electrosynthetic biofilm communities.",
  "journal": "mSystems",
  "published": "2026-Oct-08",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42847688/"
 },
 {
  "pmid": "42844017",
  "doi": "10.1101/gr.282251.126",
  "title": "Error correction algorithms for efficient gene expression quantification in single cell transcriptomics with Arcane.",
  "journal": "Genome research",
  "published": "2026-Oct-07",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42844017/"
 },
 {
  "pmid": "42844467",
  "doi": "10.1038/s41586-026-11125-y",
  "title": "Dynamics of human cardiogenesis and its disruption in trisomy 21.",
  "journal": "Nature",
  "published": "2026-Oct-07",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42844467/"
 },
 {
  "pmid": "42844723",
  "doi": "10.1177/1098612X261497556",
  "title": "EXPRESS: Metagenomic Oxford Nanopore sequencing of feline aural inflammatory polyps for pathogen discovery.",
  "journal": "Journal of feline medicine and surgery",
  "published": "2026-Oct-07",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42844723/"
 },
 {
  "pmid": "42841722",
  "doi": "10.1093/bioinformatics/btag743",
  "title": "NoiBic: a noise-tolerant biclustering algorithm for high-throughput gene expression data analysis.",
  "journal": "Bioinformatics (Oxford, England)",
  "published": "2026-Oct-07",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42841722/"
 },
 {
  "pmid": "42842483",
  "doi": "10.1177/15578666261493157",
  "title": "Random Matrix Theory-Guided Sparse Principal Component Analysis for Single-Cell RNA-Seq Data.",
  "journal": "Journal of computational biology : a journal of computational molecular cell biology",
  "published": "2026-Oct-07",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42842483/"
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 {
  "pmid": "42842485",
  "doi": "10.1177/15578666261493564",
  "title": "Super Bloom: Fast and Precise Filter for Streaming k-Mer Queries.",
  "journal": "Journal of computational biology : a journal of computational molecular cell biology",
  "published": "2026-Oct-07",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42842485/"
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 {
  "pmid": "42854274",
  "doi": "10.1016/j.compbiolchem.2026.109475",
  "title": "PDSFLRR: Low-rank representation with projection distance and sparsity constraints for clustering single-cell RNA sequencing data.",
  "journal": "Computational biology and chemistry",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42854274/"
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 {
  "pmid": "42606199",
  "doi": "10.1128/spectrum.00296-26",
  "title": "Single-cell morphological responses as predictors of ciprofloxacin resistance in Acinetobacter baumannii.",
  "journal": "Microbiology spectrum",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42606199/"
 },
 {
  "pmid": "42838172",
  "doi": "10.1016/j.cmi.2026.09.031",
  "title": "Clinical significance of Dientamoeba fragilis and Blastocystis: Lessons from clinical trials, cohort studies, and faecal microbiota transplantation - a narrative review.",
  "journal": "Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42838172/"
 },
 {
  "pmid": "42838272",
  "doi": "10.1016/j.mcpro.2026.101676",
  "title": "Benchmarking sample preservation strategies for clinical single-cell proteomics.",
  "journal": "Molecular & cellular proteomics : MCP",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42838272/"
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 {
  "pmid": "42839672",
  "doi": "10.1002/smtd.71082",
  "title": "Single-Microbe Transcriptomics Reveal Functional Heterogeneity in Sediment Microbiomes.",
  "journal": "Small methods",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42839672/"
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 {
  "pmid": "42834753",
  "doi": "10.1039/d6ay01731b",
  "title": "A hybrid neural network and sparse recovery framework for resolving multi-cell coincidence in label-free impedance cytometry.",
  "journal": "Analytical methods : advancing methods and applications",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42834753/"
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 {
  "pmid": "42836654",
  "doi": "10.1093/bioinformatics/btag572",
  "title": "STiLE: Automated Tissue Microarray Dearraying for Spatial Transcriptomics.",
  "journal": "Bioinformatics (Oxford, England)",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42836654/"
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 {
  "pmid": "42837398",
  "doi": "10.1371/journal.pcbi.1014822",
  "title": "Omics data discovery agents: Agent-supported retrieval, reanalysis, and synthesis of published omics data.",
  "journal": "PLoS computational biology",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42837398/"
 },
 {
  "pmid": "42837408",
  "doi": "10.1371/journal.pcbi.1014838",
  "title": "CardamomOT: A mechanistic optimal transport-based framework for gene regulatory network inference, trajectory reconstruction and generative modeling.",
  "journal": "PLoS computational biology",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42837408/"
 },
 {
  "pmid": "42826130",
  "doi": "10.1073/pnas.2615179123",
  "title": "Lineage and renewal dynamics of sebaceous glands govern skin barrier integrity in mice.",
  "journal": "Proceedings of the National Academy of Sciences of the United States of America",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42826130/"
 },
 {
  "pmid": "42814540",
  "doi": "10.1073/pnas.2612455123",
  "title": "Scaling laws for massively parallel microfluidics enable rapid construction of ten-million-scale natively paired antibody libraries.",
  "journal": "Proceedings of the National Academy of Sciences of the United States of America",
  "published": "2026-Oct-06",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42814540/"
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 {
  "pmid": "42859510",
  "doi": "10.21769/BioProtoc.5838",
  "title": "3D Iterative Immunofluorescence Imaging on Whole-Mount Samples.",
  "journal": "Bio-protocol",
  "published": "2026-Oct-05",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42859510/"
 },
 {
  "pmid": "42843234",
  "doi": "10.1016/j.forsciint.2026.113154",
  "title": "Prediction of age using shotgun metagenomic sequencing and random forest algorithm based on cadaveric colon.",
  "journal": "Forensic science international",
  "published": "2026-Oct-05",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42843234/"
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 {
  "pmid": "42833310",
  "doi": "10.1016/j.jhep.2026.09.021",
  "title": "Temporal assessment of spatial and single-cell transcriptomes identifies CD226-NECTIN2 T cell-cholangiocyte interaction in bile duct inflammation.",
  "journal": "Journal of hepatology",
  "published": "2026-Oct-05",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42833310/"
 },
 {
  "pmid": "42833353",
  "doi": "10.1016/j.neuroscience.2026.10.004",
  "title": "Single-cell and network voltage imaging in acute brain slices: an updated guideline.",
  "journal": "Neuroscience",
  "published": "2026-Oct-05",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42833353/"
 },
 {
  "pmid": "42833661",
  "doi": "10.1002/jat.70448",
  "title": "High-Content Screening Comparison of 1R6F Cigarette Smoke Extract and Selected Heated Tobacco and Electronic Vapour Product Aerosol Extracts in Endothelial and Bronchial Epithelial Cell Models.",
  "journal": "Journal of applied toxicology : JAT",
  "published": "2026-Oct-05",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42833661/"
 },
 {
  "pmid": "42834055",
  "doi": "10.1038/s41467-026-78143-2",
  "title": "ProFormer: generalizable classification of single-cell and plasma proteomes using deep learning.",
  "journal": "Nature communications",
  "published": "2026-Oct-05",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42834055/"
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 {
  "pmid": "42834163",
  "doi": "10.1038/s41416-026-03619-3",
  "title": "Abundant CD8+ tumor-infiltrating lymphocytes in glioblastoma harbor distinct exhaustion signatures in potentially reactive subsets.",
  "journal": "British journal of cancer",
  "published": "2026-Oct-05",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42834163/"
 },
 {
  "pmid": "42834226",
  "doi": "10.1038/s41592-026-03237-0",
  "title": "Resolving cell-cell interaction networks and their molecular logic in complex tissues.",
  "journal": "Nature methods",
  "published": "2026-Oct-05",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42834226/"
 },
 {
  "pmid": "42585093",
  "doi": "10.1002/anie.6461178",
  "title": "An In Vivo Single-Vesicle Electrochemistry Enables Monitoring Vesicular Dopamine Dynamics and Pharmacological Rescue.",
  "journal": "Angewandte Chemie (International ed. in English)",
  "published": "2026-Oct-05",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42585093/"
 },
 {
  "pmid": "42830144",
  "doi": "10.1016/j.canlet.2026.218866",
  "title": "Reactive oxygen species define leukemia stem cell identity in pediatric acute myeloid leukemia.",
  "journal": "Cancer letters",
  "published": "2026-Oct-04",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42830144/"
 },
 {
  "pmid": "42828686",
  "doi": "10.1007/s00784-026-07198-8",
  "title": "Salivary microbiome responses to chlorhexidine and Coriandrum sativum essential oil mouthwashes in patients with periodontitis in a randomized 2-week clinical trial.",
  "journal": "Clinical oral investigations",
  "published": "2026-Oct-03",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42828686/"
 },
 {
  "pmid": "42829110",
  "doi": "10.1016/j.mimet.2026.107738",
  "title": "The regulatory landscape for clinical metagenomics-based diagnostics in Europe: a critical review.",
  "journal": "Journal of microbiological methods",
  "published": "2026-Oct-03",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42829110/"
 },
 {
  "pmid": "42691952",
  "doi": "10.1158/2767-9764.CRC-26-0258",
  "title": "Window-of-Opportunity Study Utilizing Preoperative Cetuximab in Patients with Head and Neck Cancer.",
  "journal": "Cancer research communications",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42691952/"
 },
 {
  "pmid": "42024462",
  "doi": "10.1681/ASN.0000001107",
  "title": "Normalization of nCounter Gene Expression Data Alters Molecular Diagnostics in Kidney Transplantation.",
  "journal": "Journal of the American Society of Nephrology : JASN",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42024462/"
 },
 {
  "pmid": "42734426",
  "doi": "10.1152/ajpheart.00154.2026",
  "title": "Variable expressivity in long QT syndrome type 2 rabbits defines a low threshold for therapeutic IKr restoration.",
  "journal": "American journal of physiology. Heart and circulatory physiology",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42734426/"
 },
 {
  "pmid": "42820688",
  "doi": "10.1128/spectrum.01098-26",
  "title": "GCF-anchored and target-oriented mining of metagenomic BGC space for bioactive product discovery.",
  "journal": "Microbiology spectrum",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42820688/"
 },
 {
  "pmid": "42820934",
  "doi": "10.1080/1040841X.2026.2729426",
  "title": "Live probiotic encapsulation: process engineering, wall materials, and the translation gap to human gastrointestinal survival.",
  "journal": "Critical reviews in microbiology",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42820934/"
 },
 {
  "pmid": "42821712",
  "doi": "10.1109/TCBBIO.2026.3738851",
  "title": "Hypergraph-Attention-Guided Graph Refinement and Feature Decoupling for Single-Cell RNA-seq Clustering.",
  "journal": "IEEE transactions on computational biology and bioinformatics",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42821712/"
 },
 {
  "pmid": "42822746",
  "doi": "10.1016/j.actbio.2026.09.053",
  "title": "Spatio-temporal Mechanosensitive Phagocytic Response of Retinal Pigment Epithelial Cells to Reversible Changes in Substrate Stiffness.",
  "journal": "Acta biomaterialia",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42822746/"
 },
 {
  "pmid": "42019285",
  "doi": "10.1016/j.talanta.2026.129864",
  "title": "Deep Learning-Assisted identification and quantification of cell-associated microplastics using darkfield hyperspectral imaging.",
  "journal": "Talanta",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42019285/"
 },
 {
  "pmid": "42476233",
  "doi": "10.1016/j.exger.2026.113242",
  "title": "Bisphenol A drives the comorbidity of non-alcoholic fatty liver disease and osteoarthritis by targeting RHOB: Integrated multi-omics, single-cell analysis, and experimental validation.",
  "journal": "Experimental gerontology",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42476233/"
 },
 {
  "pmid": "42528196",
  "doi": "10.1262/jrd.2026-026",
  "title": "Human iPSC-derived fetal granulosa-like cells enhance oocyte maturation outcomes and enable multi-generational safety evaluation in a mouse IVM model.",
  "journal": "The Journal of reproduction and development",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42528196/"
 },
 {
  "pmid": "42586231",
  "doi": "10.1016/j.yexcr.2026.115150",
  "title": "Enhancer collapse dictates PKHD1 silencing and centrosome-mediated chromosomal instability and metastasis in clear cell renal cell carcinoma.",
  "journal": "Experimental cell research",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42586231/"
 },
 {
  "pmid": "42816712",
  "doi": "10.1007/s10067-026-08453-9",
  "title": "Identification and functional characterization of ASCC2 as a diagnostic biomarker and immune regulatory hub in Kawasaki disease.",
  "journal": "Clinical rheumatology",
  "published": "2026-Oct-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42816712/"
 },
 {
  "pmid": "41912802",
  "doi": "10.1038/s41592-026-03045-6",
  "title": "SNP calling, haplotype phasing and allele-specific analysis with long RNA-seq reads.",
  "journal": "Nature methods",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/41912802/"
 },
 {
  "pmid": "42444523",
  "doi": "10.1002/jpn3.70504",
  "title": "Gut microbiome in pediatric acute pancreatitis and Crohn's disease versus irritable bowel syndrome and healthy controls.",
  "journal": "Journal of pediatric gastroenterology and nutrition",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42444523/"
 },
 {
  "pmid": "42661101",
  "doi": "10.1038/s44320-026-00244-3",
  "title": "Tracking cell fate through morphodynamics.",
  "journal": "Molecular systems biology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42661101/"
 },
 {
  "pmid": "42842295",
  "doi": "10.1099/mgen.0.001855",
  "title": "Association of microbial pathways predicted/inferred using 16S and shotgun metagenome with faecal metabolite abundances.",
  "journal": "Microbial genomics",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42842295/"
 },
 {
  "pmid": "42487511",
  "doi": "10.1002/1878-0261.70310",
  "title": "Spatial biology in cancer epigenetics.",
  "journal": "Molecular oncology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42487511/"
 },
 {
  "pmid": "42836738",
  "doi": "10.1002/alz.71895",
  "title": "Cell-based polygenic risk scores predict clinical progression and prioritize network-based therapeutic targets in Alzheimer's disease.",
  "journal": "Alzheimer's & dementia : the journal of the Alzheimer's Association",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42836738/"
 },
 {
  "pmid": "41554477",
  "doi": "10.1016/j.jare.2026.01.035",
  "title": "scPlantAnnotate: an accurate and robust transformer-based model for plant cell type annotation.",
  "journal": "Journal of advanced research",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/41554477/"
 },
 {
  "pmid": "41746551",
  "doi": "10.1007/s10528-026-11345-x",
  "title": "Identification of Gene Signatures Differentiating Cancer from Normal Tissues Across Histological Classifications of Gastric Adenocarcinoma via Machine Learning Methods.",
  "journal": "Biochemical genetics",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/41746551/"
 },
 {
  "pmid": "41998476",
  "doi": "10.1007/s10528-026-11380-8",
  "title": "A Method for Imputing scRNA-seq Data Based on Mobile Graph Convolutional Generative Adversarial Networks.",
  "journal": "Biochemical genetics",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/41998476/"
 },
 {
  "pmid": "42020680",
  "doi": "10.1007/s12094-026-04357-x",
  "title": "Predictive model for clear cell renal cell carcinoma: a novel model integrating sunitinib resistance and prognosis related genes and clinical factors.",
  "journal": "Clinical & translational oncology : official publication of the Federation of Spanish Oncology Societies and of the National Cancer Institute of Mexico",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42020680/"
 },
 {
  "pmid": "42035921",
  "doi": "10.1016/j.spinee.2026.04.027",
  "title": "Molecular traces of microbial cross-kingdom migration: from the gut ecosystem to the intervertebral disc microenvironment.",
  "journal": "The spine journal : official journal of the North American Spine Society",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42035921/"
 },
 {
  "pmid": "42066389",
  "doi": "10.1016/j.compbiolchem.2026.109086",
  "title": "An integrated single-cell transcriptomics and explainable AI approach for cancer stemness biomarker discovery in non-small cell lung cancer.",
  "journal": "Computational biology and chemistry",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42066389/"
 },
 {
  "pmid": "42068630",
  "doi": "10.1016/j.compbiolchem.2026.109095",
  "title": "Integrative multi-omics analysis identifies stromal-immune crosstalk as a determinant of immunotherapy efficacy and establishes a prognostic signature in gastric cancer.",
  "journal": "Computational biology and chemistry",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42068630/"
 },
 {
  "pmid": "42070330",
  "doi": "10.1016/j.compbiolchem.2026.109100",
  "title": "Normalization choice drives biological interpretation in single-cell RNA-seq cancer studies: A systematic benchmarking of 465 computational pipelines.",
  "journal": "Computational biology and chemistry",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42070330/"
 },
 {
  "pmid": "42134147",
  "doi": "10.1016/j.compbiolchem.2026.109112",
  "title": "A variational graph autoencoder guided by residual multi-head attention reveals heterogeneity in spatial transcriptomics.",
  "journal": "Computational biology and chemistry",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42134147/"
 },
 {
  "pmid": "42209670",
  "doi": "10.1038/s41585-026-01149-4",
  "title": "Single-cell and spatial RNA sequencing in prostate cancer.",
  "journal": "Nature reviews. Urology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42209670/"
 },
 {
  "pmid": "42215211",
  "doi": "10.1016/j.fm.2026.105131",
  "title": "Single-cell Raman spectroscopy-machine learning combination: Rapid and accurate strain-level identification of Bifidobacterium animalis subsp. lactis J12.",
  "journal": "Food microbiology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42215211/"
 },
 {
  "pmid": "42259461",
  "doi": "10.1016/j.ymeth.2026.06.002",
  "title": "A fluorescence-based high-content imaging workflow for multi-parametric lipid droplet phenotyping via Oil Red O fluorescence.",
  "journal": "Methods (San Diego, Calif.)",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42259461/"
 },
 {
  "pmid": "42269881",
  "doi": "10.1016/j.biortech.2026.135143",
  "title": "Artificial intelligence-enabled real-time monitoring of intracellular lipid dynamics in microalgae via optical sensors and kinetic early-warning differentiation.",
  "journal": "Bioresource technology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42269881/"
 },
 {
  "pmid": "42275753",
  "doi": "10.1016/j.compbiolchem.2026.109161",
  "title": "A systematic review of algorithmic challenges in noise modelling for multimodal single-cell.",
  "journal": "Computational biology and chemistry",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42275753/"
 },
 {
  "pmid": "42287534",
  "doi": "10.1007/s12010-026-05786-8",
  "title": "Interpretable scRNA-seq Analysis with Intelligent Gene Selection.",
  "journal": "Applied biochemistry and biotechnology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42287534/"
 },
 {
  "pmid": "42296790",
  "doi": "10.1016/j.cmpb.2026.109506",
  "title": "Strategies for incorporating alternative splicing variants in thyroid nodule biopsy classification based on expression levels.",
  "journal": "Computer methods and programs in biomedicine",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42296790/"
 },
 {
  "pmid": "42361430",
  "doi": "10.1016/j.virol.2026.111015",
  "title": "Viral etiology of orogenital papillomatosis and squamous cell carcinoma in bottlenose dolphins in the southeastern United States.",
  "journal": "Virology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42361430/"
 },
 {
  "pmid": "42361720",
  "doi": "10.1016/j.prp.2026.156600",
  "title": "Dimethylglycine accelerate atherosclerosis by mediating macrophages ferroptosis via NRF2 pathway suppression.",
  "journal": "Pathology, research and practice",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42361720/"
 },
 {
  "pmid": "42364829",
  "doi": "10.1016/j.critrevonc.2026.105461",
  "title": "Artificial Intelligence in drug discovery and development: current landscape, challenges, and future perspectives.",
  "journal": "Critical reviews in oncology/hematology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42364829/"
 },
 {
  "pmid": "42398436",
  "doi": "10.1016/j.rvsc.2026.106315",
  "title": "Evaluating detection of Histophilus somni immunoglobulin-binding protein A DR2 Fic: A species-specific gene target for recombinase polymerase amplification relative to long-read sequencing of respiratory samples from feedlot calves.",
  "journal": "Research in veterinary science",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42398436/"
 },
 {
  "pmid": "42409088",
  "doi": "10.1016/j.ymeth.2026.06.009",
  "title": "Quantitative single-cell analysis of PML-RARα oncogene-induced DNA damage along cell cycle progression.",
  "journal": "Methods (San Diego, Calif.)",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42409088/"
 },
 {
  "pmid": "42413735",
  "doi": "10.1016/j.taap.2026.117938",
  "title": "Bisphenol a exposure induces low back pain associated with intervertebral disc degeneration via BIRC3-mediated nucleus pulposus cell senescence.",
  "journal": "Toxicology and applied pharmacology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42413735/"
 },
 {
  "pmid": "42413841",
  "doi": "10.1016/j.ymeth.2026.07.007",
  "title": "Mapping protein-DNA interactions across biological scales: principles, scalability and applications.",
  "journal": "Methods (San Diego, Calif.)",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42413841/"
 },
 {
  "pmid": "42418904",
  "doi": "10.1016/j.psychres.2026.117317",
  "title": "Multi-cohort evidence for impaired microbial support of the methionine cycle in children with autism spectrum disorder.",
  "journal": "Psychiatry research",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42418904/"
 },
 {
  "pmid": "42419186",
  "doi": "10.1016/j.compbiolchem.2026.109222",
  "title": "Computational strategies for uncovering bacterial biocatalysts in the biodegradation of persistent organic pollutants.",
  "journal": "Computational biology and chemistry",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42419186/"
 },
 {
  "pmid": "42419189",
  "doi": "10.1016/j.compbiolchem.2026.109230",
  "title": "Identification and verification of immunogenic cell death-related signatures derived from bone metastasis of prostate cancer based on multi-omics and machine learning algorithms.",
  "journal": "Computational biology and chemistry",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42419189/"
 },
 {
  "pmid": "42462501",
  "doi": "10.1016/j.jtemb.2026.127926",
  "title": "Protective effect of soybean isoflavone (SI) on ovarian damages by zinc oxide nanoparticles (ZnONPs) in female mice.",
  "journal": "Journal of trace elements in medicine and biology : organ of the Society for Minerals and Trace Elements (GMS)",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42462501/"
 },
 {
  "pmid": "42475793",
  "doi": "10.1016/j.carres.2026.110046",
  "title": "Discovery and characterization of a novel GH6 multifunctional enzyme from soil metagenomic library.",
  "journal": "Carbohydrate research",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42475793/"
 },
 {
  "pmid": "42484820",
  "doi": "10.1245/s10434-026-20175-5",
  "title": "An Integrated Cell-Death Program Defines Aggressive Prostate Cancer by Coupling Ezrin to the Hippo-YAP/TAZ Axis.",
  "journal": "Annals of surgical oncology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42484820/"
 },
 {
  "pmid": "42486250",
  "doi": "10.1016/j.exer.2026.111178",
  "title": "A unified developmental timeline of pigmented ocular tissues in the mouse eye.",
  "journal": "Experimental eye research",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42486250/"
 },
 {
  "pmid": "42520472",
  "doi": "10.1016/j.tranon.2026.102942",
  "title": "Integrating single-cell and bulk transcriptomics to identify a SUMOylation-related prognostic signature and the oncogenic role of VPS72 in hepatocellular carcinoma.",
  "journal": "Translational oncology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42520472/"
 },
 {
  "pmid": "42537471",
  "doi": "10.1016/j.phymed.2026.158615",
  "title": "Mechanism of effective-component compatibility of Bufei Yishen formula Ⅲ in COPD and identification of hub genes.",
  "journal": "Phytomedicine : international journal of phytotherapy and phytopharmacology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42537471/"
 },
 {
  "pmid": "42555166",
  "doi": "10.1002/mc.70162",
  "title": "Integrated Immunological Analysis of Interactions Between CXCL13+ T Cells and LAMP3+ DC in the Immunotherapy Response of Bladder Cancer.",
  "journal": "Molecular carcinogenesis",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42555166/"
 },
 {
  "pmid": "42556130",
  "doi": "10.1016/j.tranon.2026.102966",
  "title": "Unveiling the power of TIIC: A prognostic tool for esophageal adenocarcinoma.",
  "journal": "Translational oncology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42556130/"
 },
 {
  "pmid": "42556173",
  "doi": "10.1016/j.jcyt.2026.102925",
  "title": "Uncovering molecular and functional dynamics of human hematopoietic stem cells during in vitro culture for cell therapy manufacturing.",
  "journal": "Cytotherapy",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42556173/"
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 {
  "pmid": "42560632",
  "doi": "10.1007/s40121-026-01401-9",
  "title": "Clinical Research on Microecological Landscape for Infection Risk Stratification in Newly Diagnosed Patients with Hematological Conditions.",
  "journal": "Infectious diseases and therapy",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42560632/"
 },
 {
  "pmid": "42574989",
  "doi": "10.1016/j.phymed.2026.158612",
  "title": "Formononetin Antagonizes Osteosarcoma Metastasis by Targeting CD44: An Integrated Multi-Omics Study.",
  "journal": "Phytomedicine : international journal of phytotherapy and phytopharmacology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42574989/"
 },
 {
  "pmid": "42585681",
  "doi": "10.1016/j.phymed.2026.158697",
  "title": "Otophylloside T alleviates depression-like behaviors by directly targeting EP4: An integrated multi-strategy study.",
  "journal": "Phytomedicine : international journal of phytotherapy and phytopharmacology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42585681/"
 },
 {
  "pmid": "42595652",
  "doi": "10.1016/j.pathol.2026.06.008",
  "title": "Translating single-cell RNA sequencing into monocyte direct leukocyte subpopulation-transcript abundance assay ratio-based biomarkers (IFI27/PSAP or IFI27/CTSS) for clinical detection of viral infection.",
  "journal": "Pathology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42595652/"
 },
 {
  "pmid": "42600493",
  "doi": "10.1016/j.slasd.2026.100329",
  "title": "Application of dual-view oblique plane microscopy to small-molecule compound screening across 3D glioblastoma stem cell spheroids with single-cell resolution.",
  "journal": "SLAS discovery : advancing life sciences R & D",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42600493/"
 },
 {
  "pmid": "42603344",
  "doi": "10.1016/j.tranon.2026.102971",
  "title": "Integration of single-cell transcriptomics and genomic mutation analysis identifies an immunotherapy-resistant tumor subcluster and validates ARNTL2 as a malignant driver in lung adenocarcinoma.",
  "journal": "Translational oncology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42603344/"
 },
 {
  "pmid": "42608059",
  "doi": "10.1111/nph.71508",
  "title": "The combination of morphogenic regulators BABY BOOM and GRF-GIF improves maize transformation efficiency and promotes leaf regeneration.",
  "journal": "The New phytologist",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42608059/"
 },
 {
  "pmid": "42632123",
  "doi": "10.1016/j.tranon.2026.102992",
  "title": "Integrative single-cell sequencing and machine learning analyses identify chronic inflammation and cancer-associated fibroblast subsets as drivers of adverse outcomes in ovarian cancer.",
  "journal": "Translational oncology",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42632123/"
 },
 {
  "pmid": "42688902",
  "doi": "10.1093/jbmrpl/ziag117",
  "title": "Generation of spCAS9 expressing human mesenchymal stem cell line to study gene function during osteoblast differentiation.",
  "journal": "JBMR plus",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42688902/"
 },
 {
  "pmid": "42725083",
  "doi": "10.1016/j.mtbio.2026.103622",
  "title": "A targeted triple-action redox-modulating hydrogel potentiates fibroblast-mediated repair to accelerate oral wound healing.",
  "journal": "Materials today. Bio",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42725083/"
 },
 {
  "pmid": "42803180",
  "doi": "10.1002/jgm.70115",
  "title": "Identification and Experimental Validation of PANoptosis Key Genes for Constructing a PANoptosis Risk Diagnostic Model in Intervertebral Disc Degeneration.",
  "journal": "The journal of gene medicine",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42803180/"
 },
 {
  "pmid": "42808964",
  "doi": "10.1002/cpz1.70445",
  "title": "Investigating CD8 T Cell Exhaustion in Chronic LCMV Infection by Flow Cytometry.",
  "journal": "Current protocols",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42808964/"
 },
 {
  "pmid": "42816930",
  "doi": "10.1111/rda.70280",
  "title": "Sperm Recovery and Evaluation in Domestic Species: Challenges and Current Practices.",
  "journal": "Reproduction in domestic animals = Zuchthygiene",
  "published": "2026-Oct",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42816930/"
 },
 {
  "pmid": "42878693",
  "doi": "10.1515/sagmb-2025-0074",
  "title": "A research on machine learning based gene selection algorithms for RNA-seq data.",
  "journal": "Statistical applications in genetics and molecular biology",
  "published": "2026-Jan-01",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42878693/"
 },
 {
  "pmid": "42923064",
  "doi": "10.1093/nargab/lqag127",
  "title": "WasteFams: a database of protein families from global wastewater microbiomes.",
  "journal": "NAR genomics and bioinformatics",
  "published": "2026-Dec",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42923064/"
 },
 {
  "pmid": "42909367",
  "doi": "10.1093/nargab/lqag128",
  "title": "Cell DiffErential Expression by Pooling (CellDEEP) highlights issues in differential gene expression in scRNA-seq.",
  "journal": "NAR genomics and bioinformatics",
  "published": "2026-Dec",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42909367/"
 },
 {
  "pmid": "42903567",
  "doi": "10.1002/qub2.70057",
  "title": "MIGC: Pseudotime differentially expressed genes detection with mutual information.",
  "journal": "Quantitative biology (Beijing, China)",
  "published": "2026-Dec",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42903567/"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.19.760085",
  "title": "Phylogenomic screening reveals idsA2 loss conferring nitroimidazole cross-resistance in Mycobacterium tuberculosis",
  "journal": "biorxiv preprint",
  "published": "2026-10-24",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.19.760085"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.02.09.704686",
  "title": "Anaerobic methane oxidation by ANME-2a at 2 M chloride in the Orca Basin halocline",
  "journal": "biorxiv preprint",
  "published": "2026-10-24",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.02.09.704686"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.05.19.726271",
  "title": "A Plasmodium falciparum Pangenome Resource to Drive Structural Variant Discovery and to assist Malaria Control",
  "journal": "biorxiv preprint",
  "published": "2026-10-24",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.05.19.726271"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.20.760490",
  "title": "Efficient permuted intron-exon RNA circularization system based on the LtrB group II Intron from Lactococcus lactis",
  "journal": "biorxiv preprint",
  "published": "2026-10-24",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.20.760490"
 },
 {
  "pmid": "",
  "doi": "10.1101/2024.07.21.604448",
  "title": "VIOLIN: A modular framework for scalable reconciliation of heterogeneous interaction graphs",
  "journal": "biorxiv preprint",
  "published": "2026-10-24",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.1101/2024.07.21.604448"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.09.14.751599",
  "title": "CDSeq2 integrates individual-level cell-type expression deconvolution with recoverability-guided prioritization",
  "journal": "biorxiv preprint",
  "published": "2026-10-22",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.09.14.751599"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.20.755227",
  "title": "LiverHomo: An Integrated and Interactive Human Liver Single-Cell Atlas with Protein Interaction and Cell-Cell Communication Networks",
  "journal": "biorxiv preprint",
  "published": "2026-10-22",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.20.755227"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.21.760668",
  "title": "Unlocking the secrets of paired terminal genomic repeats utilised by the Burkholderia jumbo phage Matilda",
  "journal": "biorxiv preprint",
  "published": "2026-10-22",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.21.760668"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.16.26365732",
  "title": "Impact of air pollution and tobacco smoke on the placental small non-coding RNA landscape",
  "journal": "medrxiv preprint",
  "published": "2026-10-19",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.16.26365732"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.12.758476",
  "title": "LIF is a pro-algesic mediator in human and mouse models of arthritis-related pain",
  "journal": "biorxiv preprint",
  "published": "2026-10-18",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.12.758476"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.15.759509",
  "title": "Scalable Enzyme Reaction Retrieval Enables Metagenomic Biocatalyst Discovery",
  "journal": "biorxiv preprint",
  "published": "2026-10-18",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.15.759509"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.16.759405",
  "title": "Determining cellular phylogeny and migration at high resolution in spatial genomics",
  "journal": "biorxiv preprint",
  "published": "2026-10-18",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.16.759405"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.04.13.26349911",
  "title": "Benchmarking Recording-Level Clinical Speech De-identification for Privacy-Preserving Clinical Audio",
  "journal": "medrxiv preprint",
  "published": "2026-10-17",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.04.13.26349911"
 },
 {
  "pmid": "",
  "doi": "10.1101/2025.10.06.675352",
  "title": "Glycomics Profiling Reveals a Stromal Chondroitin-4-sulfate State that Shapes Platinum Response in Ovarian Cancer",
  "journal": "biorxiv preprint",
  "published": "2026-10-17",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.1101/2025.10.06.675352"
 },
 {
  "pmid": "",
  "doi": "10.1101/2025.04.05.647358",
  "title": "Effects of host DNA and k-mer size on metagenomic classification of historical samples",
  "journal": "biorxiv preprint",
  "published": "2026-10-17",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.1101/2025.04.05.647358"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.10.758202",
  "title": "Tensorizing Pairwise Structural Analysis: GPU-Accelerated RMSD and FCC Clustering in HADDOCK3 Without Structural Regression.",
  "journal": "biorxiv preprint",
  "published": "2026-10-17",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.10.758202"
 },
 {
  "pmid": "",
  "doi": "10.1101/2025.04.04.647096",
  "title": "Mapping the spatial architecture of glioblastoma from core to edge delineates niche-specific tumor cell states and intercellular interactions",
  "journal": "biorxiv preprint",
  "published": "2026-10-17",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.1101/2025.04.04.647096"
 },
 {
  "pmid": "",
  "doi": "10.1101/2024.10.08.617260",
  "title": "Spatial Single-Cell Mapping of Transcriptional Differences Across Genetic Backgrounds in Mouse Brains",
  "journal": "biorxiv preprint",
  "published": "2026-10-17",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.1101/2024.10.08.617260"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.13.26364774",
  "title": "Four Years of Continuous Weekly Wastewater Analysis Reveals Sequencing as a Robust Alternative to PCR for Respiratory Virome Surveillance.",
  "journal": "medrxiv preprint",
  "published": "2026-10-15",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.13.26364774"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.14.26365432",
  "title": "THE GENETIC LANDSCAPE OF HEREDITARY SPASTIC PARAPLEGIA IN CANADA",
  "journal": "medrxiv preprint",
  "published": "2026-10-15",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.14.26365432"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.09.02.26361780",
  "title": "MAP3K7 Loss of Function Causes Dilated Cardiomyopathy",
  "journal": "medrxiv preprint",
  "published": "2026-10-15",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.09.02.26361780"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.14.756197",
  "title": "Mitigating genotype-driven bias improves atlas-scale single-cell DNA methylome profiling",
  "journal": "biorxiv preprint",
  "published": "2026-10-15",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.14.756197"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.08.755518",
  "title": "Cortex-wide single-cell activity mapping in freely moving mice",
  "journal": "biorxiv preprint",
  "published": "2026-10-15",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.08.755518"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.05.26364229",
  "title": "Forecasting Alzheimer's disease progression using non-imaging clinical features and XGBoost",
  "journal": "medrxiv preprint",
  "published": "2026-10-07",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.05.26364229"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.02.26364030",
  "title": "Integrated single-cell and proteomic profiling of pancreatic neoplasia identifies tissue markers that outperform established diagnostic markers in distinguishing cancer from precursor lesions.",
  "journal": "medrxiv preprint",
  "published": "2026-10-07",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.02.26364030"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.05.26363801",
  "title": "Data Reduction in SARS-CoV-2 Amplicon Sequencing: Effects of Read Subsampling and Normalization on Consensus Quality, Lineage Assignment, and Computational Burden",
  "journal": "medrxiv preprint",
  "published": "2026-10-07",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.05.26363801"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.06.756887",
  "title": "Pulsed Field Ablation Enables Stromal Manipulation and Tumor Reduction in Pancreatic Ductal Adenocarcinoma",
  "journal": "biorxiv preprint",
  "published": "2026-10-07",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.06.756887"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.10.06.756936",
  "title": "Loss of the Y chromosome drives basal identity and metastatic potential via epigenetic reprogramming in pancreatic cancer",
  "journal": "biorxiv preprint",
  "published": "2026-10-07",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.10.06.756936"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.09.29.755303",
  "title": "EndoMT: An R Package Resource for Endothelial-Mesenchymal Transition Gene Set Enrichment Analysis",
  "journal": "biorxiv preprint",
  "published": "2026-10-05",
  "topic": "bioinformatics",
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  "topic": "bioinformatics",
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  "title": "Sequencing for a Lifetime: Professional Perspectives on the Value and Feasibility of Lifelong Genomic Medicine",
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  "title": "Rare Germline Variants and Genetic Susceptibility to Pleural Mesothelioma: Moving Beyond DNA Repair",
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  "title": "Amplicon-based targeted next generation sequencing (tNGS) for Mycobacterium tuberculosis - unpacking the 'black box'",
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  "title": "Peripheral Immune Alterations and T Cell Clonal Dynamics Across the Parkinson's Disease Spectrum",
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  "topic": "bioinformatics",
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  "title": "Precocious maturation and Purkinje cell dysfunction in the mouse Chd8 haploinsufficient cerebellum",
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  "title": "Analysis of SpCas9 on- and off-target effects in high efficiency multiplex editing in Arabidopsis",
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  "doi": "10.34133/csbj.0246",
  "title": "A Two-Stage ESM-Based Machine Learning Pipeline for Robust Hierarchically Evaluated Enzyme Function Prediction.",
  "journal": "Computational and structural biotechnology journal",
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  "title": "Tropheryma whipplei Pneumonia with Myelofibrosis: A Rare Actinomycetia Case Report and Literature Review.",
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  "doi": "10.1155/humu/5519367",
  "title": "Identification of Immuno-Diagnostic and Therapeutic Markers in Tumors and Inflammatory Diseases Based on Single-Cell and Machine Learning Methods.",
  "journal": "Human mutation",
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  "title": "Proteomics in Antitumor Drug Target Discovery, Toxicity, Resistance, and Precision Oncology.",
  "journal": "Drug design, development and therapy",
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  "title": "Codon-aware multi-scale feature fusion for metagenomic sequence classification.",
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  "doi": "10.2147/IMCRJ.S616885",
  "title": "Diagnostic Challenges in mNGS for Pulmonary Mucormycosis Presenting with Imaging Features Resembling Those of Lung Cancer.",
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  "title": "ChoCallate: a computational pipeline for consensus germline variant calling in genomic sequencing data.",
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  "title": "NeighborFinder: an R package inferring local microbial network around a species of interest.",
  "journal": "Bioinformatics advances",
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]