Jul 20, 2026 · 9 min · scRNA-seq clustering (GSE142256) → DESeq2 responder DE → clusterProfiler complement enrichment (GO:0006958, p < 0.01) in one BioMate session.
Jul 20, 2026 · 10 min · gwas_scrna_eqtl_target_chain: MG 3 GWAS loci PP4=0.72; CIDP 1 locus PP4=0.44; GBS no genome-wide signal. Evidence-ranked indication map in one run.
Jul 20, 2026 · 9 min · 11-compartment PBPK (Cmax ~30 µg/mL, MAPE < 10%) + CTD §2.6.1 narrative + SHA256 audit manifest with claims_index.json in one session.
Jul 20, 2026 · 9 min · 10-compartment ODE adds peripheral nerve, spinal cord, DRG, NMJ, CSF. CIDP BNB 3× permeability modifier. Nerve:plasma AUC ratio ~0.03–0.05.
Jul 20, 2026 · 8 min · macrophage_metabolic_state_scrna identifies 4 subtypes. M1-glycolytic expanded 42% in CIDP; repair depleted 3.1-fold. Pseudotime shows M1→repair transition blocked.
Jul 20, 2026 · 10 min · MOFA2 joint decomposition: Factor 1 complement AUROC=0.79, Factor 2 FcRn AUROC=0.71 vs responder. CLL benchmark IGHV AUROC=0.98 reproduced (Argelaguet 2018).
Jul 12, 2026 · 10 min · BioMate ran a 5-stage GWAS pipeline (MAGMA → DICE eQTL → scGWAS → MR → OpenTargets) and prioritized TYK2, CD20, JAK1, IL6R, and PTPN22. Runtime: 15–30 min vs 1–2 weeks manual.
Jul 12, 2026 · 9 min · DESeq2 on GSE89408 (101 RA synovial biopsies). 9/10 canonical RA markers confirmed. CXCL13 +4.2 log₂FC identifies anti-TNF non-responders.
Jul 12, 2026 · 8 min · 9/10 ADMET properties correct vs FDA NDA 214958. Sub-percent PPBR error. DILI false positive corrected with allosteric class rule. 1m 41s runtime.
Jul 12, 2026 · 9 min · Two-compartment PBPK (7% MAPE vs BLA 125276) + §2.6.1/§2.6.4 regulatory narratives generated in one BioMate session.
Jul 12, 2026 · 8 min · 17/20 correct primary endpoints across 20 FDA-approved autoimmune drugs. Zero hallucinated composite measures. 100% in RA, psoriasis, PsA, and AD.
Jul 11, 2026 · 8 min · One tool manifest, eight AI surfaces, zero duplicated logic. How BioMate connects Claude Code, Claude Science, Cursor, Codex CLI, ChatGPT, Slack, and Feishu to the same biomedical research execution engine via stdio, Streamable HTTP, REST Actions, and webhooks.
Jun 29, 2026 · 8 min · Public bioinformatics agent skills improved in 2026 — real R DESeq2, citations, even CI. But the CI validates the document, not the run. A skill tells an agent how; BioMate runs it.
Jun 9, 2026 · 7 min · Across a 20-task benchmark, an ungrounded LLM cited real Bioconductor functions only 71.4% of the time. Structure grounding lifts it to 88.2% — and real execution is the ground truth.
Apr 22, 2026 · 7 min · BioMate coordinates specialized AI systems for routing, analysis, quality evaluation, and findings narration — matching each scientific task to the reasoning capability best suited to it.
Jul 3, 2026 · 9 min · BioMate queries UniProt, PDB, AlphaFold, ChEMBL, Ensembl, gnomAD, ClinVar, GEO, KEGG, Reactome, and 50+ more live databases in real time — with worked examples across protein biology, genomics, drug discovery, and omics data.
Apr 20, 2026 · 6 min · The full Bioconductor ecosystem of peer-reviewed R methods, available through plain-English requests — no R required.
Apr 18, 2026 · 8 min · BioMate continuously monitors primary tool sources, tests candidates against sample datasets, and adds validated workflows after human review.
Apr 17, 2026 · 6 min · BioMate's multi-tier memory hierarchy learns your lab's preferences, QC standards, and workflows — improving recommendations with every session.
Apr 15, 2026 · 7 min · Hybrid semantic search combining vector embeddings, domain scoring, and reasoning resolves ambiguous requests to the right workflow — or surfaces ranked alternatives.
Jun 16, 2026 · 7 min · A 4-phase pipeline infers bispecific mechanism, scores 5 formats across 6 axes, and outputs the CrossMab architecture — recovering the Akeso ivonescimab design from PD-1 + VEGF alone.
Jun 16, 2026 · 7 min · A 4-phase co-design pipeline that does atlas safety check, LNP tropism selection, fratricide verification, and CAR construct assembly — recovering the Capstan CPTX2309 architecture from biology alone.
Jun 16, 2026 · 8 min · A 5-phase pipeline infers editor class, guide RNA, delivery platform, and IND-readiness flags — reconstructing VERVE-102's ABE reformulation after the VERVE-101 LFT failure.
Jun 16, 2026 · 7 min · A 4-phase receptor bakeoff scores 6 GLP-1 candidates across 6 axes — GCGR is therapeutic for MASH and a liability for T2D, and the same pipeline returns a different winner by changing one parameter.
Jun 16, 2026 · 8 min · A two-workflow chain (atlas_expression_query → modality_triage) recovers 7 of 7 Q4 2024 FDA oncology modality choices from target expression alone — BCMA to CAR-T, DLL3 to bispecific, TROP2 to ADC.
Apr 22, 2026 · 8 min · Computational target validation — structure prediction, pocket druggability, CRISPR essentiality, and functional genomics — before any chemistry begins.
Apr 21, 2026 · 8 min · AI-powered virtual screening filters millions of compounds by binding geometry, pharmacophore fit, and ADMET liability before a single assay is run.
Apr 19, 2026 · 10 min · Full ADMET profiling, CYP DDI analysis, molecular dynamics, and generative design close the lead optimization loop in silico.
Apr 17, 2026 · 9 min · PBPK simulation, allometric scaling, toxicity prediction, and IND document assembly — translating preclinical data into regulatory-ready packages.
Apr 15, 2026 · 9 min · Dose escalation simulation, population PK, pharmacogenomics stratification, and real-time safety signal analysis for clinical teams.
Apr 13, 2026 · 7 min · Post-approval safety monitoring, drug interaction surveillance, and pharmacovigilance — supporting regulatory obligations through the full product lifecycle.
Apr 11, 2026 · 7 min · Evidence-graded QC assessed against published community standards — with the specific failing metric, its value, and remediation context included in every report.
Apr 8, 2026 · 6 min · When to use established heuristic-probabilistic variant calling versus deep learning approaches — and how BioMate selects between them based on your data.
Apr 5, 2026 · 10 min · How to read ADMET results in therapeutic context — co-occurring liabilities, threshold interpretation, and actionable remediation guidance.
Apr 2, 2026 · 9 min · BioMate automates the complete cryo-EM SPA pipeline from raw micrographs to publication-ready map, with QC gates at every processing stage.
Mar 22, 2026 · 5 min · From protein sequence to ranked binding poses in one pipeline — structure prediction feeds directly into flexible docking with confidence annotation throughout.
Mar 18, 2026 · 12 min · Reinforcement learning-guided generative design explores structural variants optimized simultaneously for binding, ADMET, selectivity, and synthesizability.
Feb 28, 2026 · 5 min · BioMate generates structured compound packages — structures, ADMET predictions, assay specs, and audit trail — in formats CROs consume directly.
