[
 {
  "pmid": "42667121",
  "doi": "10.1002/advs.77461",
  "title": "Predicting Single-Cell Perturbation Responses Across Biological Contexts With a Deep Generative Model Integrating Optimal Transport.",
  "journal": "Advanced science (Weinheim, Baden-Wurttemberg, Germany)",
  "published": "2026-Aug-29",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42667121/"
 },
 {
  "pmid": "42486147",
  "doi": "10.1088/1758-5090/ae8eb5",
  "title": "Engineering epicardium-integrated human iPSC-derived heart tissue for modelling Hutchinson-Gilford progeria syndrome.",
  "journal": "Biofabrication",
  "published": "2026-Aug-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42486147/"
 },
 {
  "pmid": "42663799",
  "doi": "10.1007/s11357-026-02491-6",
  "title": "Identifying novel druggable targets and repurposable drugs for premature ovarian insufficiency by integrated multiomics and causal inference analysis.",
  "journal": "GeroScience",
  "published": "2026-Aug-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42663799/"
 },
 {
  "pmid": "42664103",
  "doi": "10.1109/TCBBIO.2026.3728504",
  "title": "Cell Type-specific Isoform Function Prediction by Multiplex Heterogeneous Network.",
  "journal": "IEEE transactions on computational biology and bioinformatics",
  "published": "2026-Aug-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42664103/"
 },
 {
  "pmid": "42664339",
  "doi": "10.1126/sciadv.aeg0134",
  "title": "Hi-Cformer enables multiscale chromatin contact map modeling for single-cell Hi-C data analysis.",
  "journal": "Science advances",
  "published": "2026-Aug-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42664339/"
 },
 {
  "pmid": "42664347",
  "doi": "10.1126/sciadv.aef0286",
  "title": "scProtoTransformer: Scalable reference mapping across molecules, cells, and donors.",
  "journal": "Science advances",
  "published": "2026-Aug-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42664347/"
 },
 {
  "pmid": "42664803",
  "doi": "10.1016/j.jaut.2026.103609",
  "title": "Multimodal computational framework resolves B cell maturation in autoimmunity and ageing.",
  "journal": "Journal of autoimmunity",
  "published": "2026-Aug-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42664803/"
 },
 {
  "pmid": "42664975",
  "doi": "10.1016/j.cels.2026.101710",
  "title": "PROFET predicts continuous gene expression dynamics from scRNA-seq data to elucidate heterogeneity of cancer treatment responses.",
  "journal": "Cell systems",
  "published": "2026-Aug-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42664975/"
 },
 {
  "pmid": "42665445",
  "doi": "10.1101/gr.281535.125",
  "title": "Identification of differential topologically associating domains from low sequencing depth and pseudo-bulk chromatin contact maps.",
  "journal": "Genome research",
  "published": "2026-Aug-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42665445/"
 },
 {
  "pmid": "42665446",
  "doi": "10.1101/gr.281981.126",
  "title": "Robust annotation and discovery of novel cell types in single-cell ATAC-seq data through cross-modal reference alignment.",
  "journal": "Genome research",
  "published": "2026-Aug-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42665446/"
 },
 {
  "pmid": "42665646",
  "doi": "10.1038/s41551-026-01785-6",
  "title": "Data-centric feedback loops for next-generation immunotherapy development.",
  "journal": "Nature biomedical engineering",
  "published": "2026-Aug-28",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42665646/"
 },
 {
  "pmid": "41728924",
  "doi": "10.1093/ndt/gfag041",
  "title": "Novel immune-related susceptibility loci associated with pediatric steroid-sensitive nephrotic syndrome identified by a transethnic genome-wide association study.",
  "journal": "Nephrology, dialysis, transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association",
  "published": "2026-Aug-27",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/41728924/"
 },
 {
  "pmid": "42660991",
  "doi": "10.1038/s41592-026-03180-0",
  "title": "All-optical multimodal mapping of single-cell-type-specific metabolic activities via REDCAT.",
  "journal": "Nature methods",
  "published": "2026-Aug-27",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42660991/"
 },
 {
  "pmid": "42549912",
  "doi": "10.1128/msphere.00304-26",
  "title": "Label-free quantification of early virus-induced cellular responses by digital holographic tomography.",
  "journal": "mSphere",
  "published": "2026-Aug-26",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42549912/"
 },
 {
  "pmid": "42642673",
  "doi": "10.1007/s12035-026-06133-y",
  "title": "Systematic Review and Transcriptomic Meta-analysis of Environmental Enrichment Reveal Core Molecular Programs of Brain Plasticity.",
  "journal": "Molecular neurobiology",
  "published": "2026-Aug-26",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42642673/"
 },
 {
  "pmid": "42644292",
  "doi": "10.1002/anie.5240036",
  "title": "Four-Dimensional Electrochemiluminescence Microscopy Enables Depth-Resolved Imaging of Single, Living Spheroids.",
  "journal": "Angewandte Chemie (International ed. in English)",
  "published": "2026-Aug-26",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42644292/"
 },
 {
  "pmid": "42645529",
  "doi": "10.1007/s00438-026-02510-3",
  "title": "Subcellular localization of human long non-coding RNAs is an isoform-resolved property masked by gene-level analysis.",
  "journal": "Molecular genetics and genomics : MGG",
  "published": "2026-Aug-26",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42645529/"
 },
 {
  "pmid": "42649447",
  "doi": "10.1038/s43588-026-01026-5",
  "title": "Longitudinal alignments and syntheses of multimodal clinical data for personalized medicine with the PULSE framework.",
  "journal": "Nature computational science",
  "published": "2026-Aug-26",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42649447/"
 },
 {
  "pmid": "42611989",
  "doi": "10.1073/pnas.2600891123",
  "title": "The immunophenotype and proviral landscape of HIV-infected CD4 T cells during antiretroviral therapy.",
  "journal": "Proceedings of the National Academy of Sciences of the United States of America",
  "published": "2026-Aug-25",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42611989/"
 },
 {
  "pmid": "42639745",
  "doi": "10.1002/adhm.71566",
  "title": "Engineering Tissue-Relevant Collagen Bundle Architectures via Macromolecular Crowding.",
  "journal": "Advanced healthcare materials",
  "published": "2026-Aug-25",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42639745/"
 },
 {
  "pmid": "42640826",
  "doi": "10.1093/bioinformatics/btag628",
  "title": "Community-driven updates for comprehensive long-read metagenomics and enhanced binning in nf-core/mag v5.",
  "journal": "Bioinformatics (Oxford, England)",
  "published": "2026-Aug-25",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42640826/"
 },
 {
  "pmid": "42640827",
  "doi": "10.1093/gpbjnl/qzag090",
  "title": "HOSCA: Human Ocular Single-Cell Atlas for Decoding Ocular Biology and Disease Complexity.",
  "journal": "Genomics, proteomics & bioinformatics",
  "published": "2026-Aug-25",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42640827/"
 },
 {
  "pmid": "42641793",
  "doi": "10.1016/j.slast.2026.100458",
  "title": "A Scalable High-Density Microwell Assay for Single-Cell Clonal Expansion Profiling.",
  "journal": "SLAS technology",
  "published": "2026-Aug-25",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42641793/"
 },
 {
  "pmid": "42642622",
  "doi": "10.1038/s42003-026-10782-z",
  "title": "Deployable high-fidelity metagenome binning at scale with QuickBin.",
  "journal": "Communications biology",
  "published": "2026-Aug-25",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42642622/"
 },
 {
  "pmid": "42662190",
  "doi": "10.1021/acsomega.6c02136",
  "title": "Computational Pipeline Reveals Nature's Untapped Reservoir of Halogenating Enzymes.",
  "journal": "ACS omega",
  "published": "2026-Aug-25",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42662190/"
 },
 {
  "pmid": "42378033",
  "doi": "10.1172/jci.insight.206449",
  "title": "The molecular similarity landscape of preclinical cancer models to patient tumors.",
  "journal": "JCI insight",
  "published": "2026-Aug-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42378033/"
 },
 {
  "pmid": "42446933",
  "doi": "10.1172/jci.insight.204610",
  "title": "A whole-blood cryopreservation method streamlines clinical sample collection for multimodal single-cell immune profiling in sepsis.",
  "journal": "JCI insight",
  "published": "2026-Aug-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42446933/"
 },
 {
  "pmid": "42483767",
  "doi": "10.1039/d6an00723f",
  "title": "Rapid assessment of intracellular lipid using a dissolvable fluorescent sensing layer for single-cell, population-level monitoring.",
  "journal": "The Analyst",
  "published": "2026-Aug-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42483767/"
 },
 {
  "pmid": "42634074",
  "doi": "10.1038/s41378-026-01428-5",
  "title": "Selective photoacoustic handling of microparticles via annular laser beams.",
  "journal": "Microsystems & nanoengineering",
  "published": "2026-Aug-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42634074/"
 },
 {
  "pmid": "42636661",
  "doi": "10.1016/j.micres.2026.128695",
  "title": "Desert-derived Ensifer sp. SA403 enhances potato salt tolerance by reshaping rhizosphere microbiome functions and host responses.",
  "journal": "Microbiological research",
  "published": "2026-Aug-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42636661/"
 },
 {
  "pmid": "42636813",
  "doi": "10.1016/j.cels.2026.101707",
  "title": "Identifying memory gene expression from single-sample scRNA-seq data using power-law signatures.",
  "journal": "Cell systems",
  "published": "2026-Aug-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42636813/"
 },
 {
  "pmid": "42636981",
  "doi": "10.1016/j.jinf.2026.106841",
  "title": "Target enriched metagenomics in cerebrospinal fluid in central nervous system infections.",
  "journal": "The Journal of infection",
  "published": "2026-Aug-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42636981/"
 },
 {
  "pmid": "42657285",
  "doi": "10.1021/cbmi.5c00296",
  "title": "Perspective on Scanning Electrochemical Probe Microscopy in Single-Cell Imaging.",
  "journal": "Chemical & biomedical imaging",
  "published": "2026-Aug-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42657285/"
 },
 {
  "pmid": "42664662",
  "doi": "10.1016/j.media.2026.104275",
  "title": "Bacteria tracking and life cycle state classification using graph neural networks and pretrained vision transformers.",
  "journal": "Medical image analysis",
  "published": "2026-Aug-24",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42664662/"
 },
 {
  "pmid": "42557105",
  "doi": "10.1523/ENEURO.0455-25.2026",
  "title": "A Streamlined Workflow for Purkinje Cell Labeling and High-Resolution Analyses of Dendrites and Spines in Mice.",
  "journal": "eNeuro",
  "published": "2026-Aug",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42557105/"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.08.25.746714",
  "title": "An entropy-based diagnostic framework for characterizingmethylation state dynamics during preimplantation development",
  "journal": "biorxiv preprint",
  "published": "2026-08-26",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.08.25.746714"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.08.25.746929",
  "title": "Unsupervised machine-learning identifies latent pyrenoid states linked to mitotic remodeling defects and CO2-dependent growth",
  "journal": "biorxiv preprint",
  "published": "2026-08-26",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.08.25.746929"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.08.19.745765",
  "title": "Peptidoglycan remodeling prevents antibiotic resistance during oxidative stress",
  "journal": "biorxiv preprint",
  "published": "2026-08-26",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.08.19.745765"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.08.24.746673",
  "title": "Likelihood-Based Inference and Model Selection for Stochastic Gene Expression in Probability-Generating-Function Space",
  "journal": "biorxiv preprint",
  "published": "2026-08-26",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.08.24.746673"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.08.23.746493",
  "title": "BfBio: a graph-based tool for the prediction of Angiogenic Stalk Cell genes using a Personalized PageRank algorithm",
  "journal": "biorxiv preprint",
  "published": "2026-08-26",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.08.23.746493"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.08.24.746774",
  "title": "Assay concordance sets exact ceilings on what one biological score can predict",
  "journal": "biorxiv preprint",
  "published": "2026-08-26",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.08.24.746774"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.04.14.718438",
  "title": "Biological Features Underlying Factor-Specific Predictability of Cross-Species Regulatory Occupancy",
  "journal": "biorxiv preprint",
  "published": "2026-08-26",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.04.14.718438"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.08.24.746807",
  "title": "The distribution of particle-associated Prochlorococcus across the global oceans",
  "journal": "biorxiv preprint",
  "published": "2026-08-26",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.08.24.746807"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.08.24.746832",
  "title": "Cell Cycle Phases, Spindle Dynamics and Kinesin-5 Motor LocalizationCharacterized by Deep Learning, Dual Segmentation and Decision-Tree Pipeline",
  "journal": "biorxiv preprint",
  "published": "2026-08-26",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.08.24.746832"
 },
 {
  "pmid": "",
  "doi": "10.64898/2026.07.20.739448",
  "title": "Uni-TINT: Unifying T and Innate Lymphoid Cell Taxonomy with a high resolution, pan-disease and pan-tissue single-cell transcriptomic atlas",
  "journal": "biorxiv preprint",
  "published": "2026-08-26",
  "topic": "bioinformatics",
  "url": "https://doi.org/10.64898/2026.07.20.739448"
 },
 {
  "pmid": "42638932",
  "doi": "10.1155/humu/3201577",
  "title": "CDKN3, PKP2, ADM, MS4A1, FAM83A, and DKK1 Define a Posttranslational Modification (PTM)-Associated Prognostic Model for Lung Adenocarcinoma.",
  "journal": "Human mutation",
  "published": "2026",
  "topic": "bioinformatics",
  "url": "https://pubmed.ncbi.nlm.nih.gov/42638932/"
 }
]