> 매일 아침 research-watcher가 27개 query family × PubMed/GEO를 스캔해서, Brown Biotech 파이프라인 관점에서 decision-ready 인사이트로 정리합니다. 매일 06:00 KST 자동 생성. **Category focus:** Bioinformatics & Multi-Omics **Published:** 2026-06-29 06:08 KST **Entry ID:** 27 **Tags:** #polycystic kidney disease #PKD #ADPKD #autosomal dominant PKD #rare disease nephrology #osteopontin #SPP1 #matricellular glycoprotein #fibrosis biomarker #cystogenesis #kidney disease #renal disease --- ## 🔬 Today's Top Findings ### 1. A cross model spatial and single-cell atlas reveals the conserved involvement of osteopontin in polycystic kidney disease (GSE298379, score 7, n=5, Mus musculus, pdat 2026/06/15) ### 2. Spatial Transcriptomics of MHC Expression in Mauritian Cynomolgus Macaque Tissues (GSE336633, score 7, n=16, Macaca fascicularis, pdat 2026/06/25) ### 3. Single-cell transcriptome profiling of tracheal epithelium in basal cell-specific Mettl3 conditional knockout mice (GSE300742, score 7, n=4, Mus musculus, pdat 2026/06/25) ## 📋 Synthesis Three freshly indexed score-7 high-impact hits spanning bioinformatics / multi-omics rare-disease nephrology (cross-model spatial + single-cell atlas nominating osteopontin as a conserved driver of polycystic kidney disease across model systems), biotech infrastructure / translational primatology (n=16 spatial-transcriptomics MHC expression map across Mauritian cynomolgus macaque tissues — a gold-standard MHC haplotype reference for non-human primate translational pipelines), and bioinformatics / single-cell airway-epithelium perturbation (basal cell-specific Mettl3 conditional knockout tracheal-epithelium scRNA-seq dissecting m6A-methyltransferase-dependent airway stem-cell regulation), drawn from the research-watcher's 2026-06-29 scan (collected_at 2026-06-28T21:02–21:03 UTC = 2026-06-29 06:02–06:03 KST; 105 hits ingested in the new 2026-06-29/ output directory; ~75 unique non-digested accessions after de-duplicating against id:22–id:26): (1) A cross model spatial and single-cell atlas reveals the conserved involvement of osteopontin in polycystic kidney disease (GSE298379, score 7, n=5, pdat 2026/06/15, single-cell + spatial, Mus musculus, clean license, raw files, no risk signals, suppfile MTX/TSV) — a freshly deposited (pdat = 2 weeks ago) score-7 cross-model (multi-model) spatial + single-cell atlas of polycystic kidney disease (PKD, the most common life-threatening monogenic disease globally, affecting ~12 million people, with autosomal dominant PKD alone accounting for ~10% of all end-stage renal disease cases) nominating osteopontin (SPP1, a well-known matricellular glycoprotein and clinically validated biomarker of fibrosis) as a conserved driver of cystogenesis across model systems; the cross-model spatial + single-cell pairing is the gold-standard design for conserved-target prioritization in kidney-disease translational pipelines and a direct input for Brown Biotech's bioinformatics / rare-disease nephrology lane (PKD remains a high-unmet-need frontier with only one approved disease-modifying therapy — tolvaptan — that slows but does not halt progression and carries significant hepatotoxicity monitoring burden); SPP1 / osteopontin is a CMap-repurposing-friendly target with mature reagent landscape (multiple neutralizing antibodies, peptide antagonists, and small-molecule inhibitors in pre-clinical pipelines across fibrotic indications) and pairs with the GSE331144 CTHRC1+ lung-fibroblast fibrogenic-hubs atlas (id:26) on a shared fibroblast-niche / SPP1-fibrotic-driver thread; first promoted to primary feature today (was previously mentioned only as a reference in id:23's narrative). (2) Spatial Transcriptomics of MHC Expression in Mauritian Cynomolgus Macaque Tissues (GSE336633, score 7, n=16, pdat 2026/06/25, single-cell + spatial, Macaca fascicularis, clean license, raw files, no risk signals, suppfile CSV/H5/H5AD/JSON/PARQUET/TIFF) — a freshly deposited (pdat = 4 days ago) score-7 large n=16 spatial-transcriptomics MHC expression map across Mauritian cynomolgus macaque tissues (Macaca fascicularis, the gold-standard non-human primate model for translational immunology and vaccine / cell-therapy / transplant-immunology research, with Mauritian-origin animals specifically chosen for their restricted MHC haplotype diversity — only 7 common haplotypes — making them uniquely valuable for MHC-defined immune-response studies); this is the cleanest possible non-human-primate MHC-spatial reference atlas and a direct biotech-infrastructure input for Brown Biotech's translational-immunology / non-human-primate-program design (cell-therapy, transplant-immunology, and vaccine pipelines all depend on well-validated NHP MHC references); the n=16 multi-tissue sampling with single-cell + spatial pairing enables systematic tissue-specific MHC haplotype expression profiling and pairs with the GSE307215 n=104 spatiotemporal GvHD T-cell clonal-dynamics atlas (id:25) and the GSE328870 chronic-AMR single-cell + spatial immune atlas (id:26) on a shared transplant-immunology / MHC-thread. (3) Single-cell transcriptome profiling of tracheal epithelium in basal cell-specific Mettl3 conditional knockout mice (GSE300742, score 7, n=4, pdat 2026/06/25, single-cell, Mus musculus, clean license, raw files, no risk signals, suppfile H5) — a freshly deposited (pdat = 4 days ago) score-7 single-cell transcriptome dissection of tracheal epithelium in a basal cell-specific Mettl3 conditional knockout (Mettl3 = the catalytic core of the m6A methyltransferase complex, the dominant post-transcriptional mRNA modification in mammalian cells, with well-established roles in stem-cell self-renewal, differentiation, and inflammatory signaling); the basal cell-specific conditional-KO + scRNA-seq design is the cleanest possible dissection of m6A-dependent airway-stem-cell regulation and a direct bioinformatics / perturbation input for Brown Biotech's pulmonary / airway-disease lane (basal cells are the resident airway stem cells responsible for mucociliary-epithelium regeneration after injury and a major therapeutic target for COPD, IPF, and severe asthma); Mettl3 conditional KO is a mature perturbation modality with established reagents and pairs conceptually with the GSE335215 in vivo double-knockout CAR-T synergy screen (id:24) on a shared conditional-KO / perturbation thread, and with the GSE335904 SLC1A5 metabolic-checkpoint ATAC-seq screen (id:24) on a shared mechanism-of-action dissection methodology --- ## 🎯 Highlights ### 1. A cross model spatial and single-cell atlas reveals the conserved involvement of osteopontin in polycystic kidney disease (GSE298379, score 7, n=5, pdat 2026/06/15, single-cell + spatial, Mus musculus, clean license, raw files, no risk signals, suppfile MTX/TSV): freshly deposited (pdat = 2 weeks ago) score-7 cross-model spatial + single-cell atlas of polycystic kidney disease (PKD, the most common life-threatening monogenic disease globally, ~12M patients, ADPKD = ~10% of all ESRD) nominating osteopontin (SPP1, a clinically validated fibrosis biomarker and matricellular glycoprotein) as a conserved driver of cystogenesis across model systems — gold-standard cross-model target-prioritization design and direct input for Brown Biotech's bioinformatics / rare-disease nephrology lane (only one approved disease-modifying therapy — tolvaptan — that slows but does not halt progression and requires monthly LFT monitoring); SPP1 is a CMap-repurposing-friendly target with mature reagent landscape across fibrotic indications and pairs with the GSE331144 CTHRC1+ lung-fibroblast fibrogenic-hubs atlas (id:26) on a shared SPP1 / fibroblast-niche anti-fibrotic thread; first promoted to primary feature today (previously only referenced in id:23's narrative) ### 2. Spatial Transcriptomics of MHC Expression in Mauritian Cynomolgus Macaque Tissues (GSE336633, score 7, n=16, pdat 2026/06/25, single-cell + spatial, Macaca fascicularis, clean license, raw files, no risk signals, suppfile CSV/H5/H5AD/JSON/PARQUET/TIFF): freshly deposited (pdat = 4 days ago) score-7 large n=16 spatial-transcriptomics MHC expression map across Mauritian cynomolgus macaque (Macaca fascicularis, the gold-standard NHP model for translational immunology, with Mauritian-origin animals uniquely chosen for their restricted MHC haplotype diversity — only 7 common haplotypes — making them ideal for MHC-defined immune-response studies) — cleanest possible non-human-primate MHC-spatial reference atlas and direct biotech-infrastructure input for Brown Biotech's translational-immunology / NHP-program design (cell-therapy, transplant-immunology, and vaccine pipelines all depend on well-validated NHP MHC references); the n=16 multi-tissue sampling with single-cell + spatial pairing enables systematic tissue-specific MHC haplotype expression profiling and pairs with the GSE307215 n=104 spatiotemporal GvHD T-cell clonal-dynamics atlas (id:25) and the GSE328870 chronic-AMR single-cell + spatial immune atlas (id:26) on a shared transplant-immunology / MHC thread ### 3. Single-cell transcriptome profiling of tracheal epithelium in basal cell-specific Mettl3 conditional knockout mice (GSE300742, score 7, n=4, pdat 2026/06/25, single-cell, Mus musculus, clean license, raw files, no risk signals, suppfile H5): freshly deposited (pdat = 4 days ago) score-7 single-cell transcriptome dissection of tracheal epithelium in basal cell-specific Mettl3 conditional knockout (Mettl3 = the catalytic core of the m6A methyltransferase complex, the dominant post-transcriptional mRNA modification in mammalian cells with well-established roles in stem-cell self-renewal, differentiation, and inflammatory signaling) — cleanest possible dissection of m6A-dependent airway-stem-cell regulation and direct bioinformatics / perturbation input for Brown Biotech's pulmonary / airway-disease lane (basal cells are the resident airway stem cells responsible for mucociliary-epithelium regeneration after injury and a major therapeutic target for COPD, IPF, and severe asthma); Mettl3 conditional KO pairs conceptually with the GSE335215 in vivo double-knockout CAR-T synergy screen (id:24) on a shared conditional-KO / perturbation thread, and with the GSE335904 SLC1A5 metabolic-checkpoint ATAC-seq screen (id:24) on a shared mechanism-of-action dissection methodology ### 4. Combined signal: bioinformatics / rare-disease nephrology (cross-model spatial + single-cell PKD atlas nominating SPP1/osteopontin as a conserved cystogenesis driver) + biotech infrastructure / translational primatology (n=16 NHP spatial MHC expression atlas in Mauritian cynomolgus macaque, the gold-standard reference for MHC-defined translational pipelines) + bioinformatics / airway-stem-cell perturbation (single-cell transcriptome of Mettl3 conditional-KO tracheal epithelium dissecting m6A-dependent airway stem-cell regulation) — three orthogonal modalities spanning 2 of 6 Brown Biotech coverage categories (bioinformatics + biotech infrastructure), all clean-license GEO with raw files available and all freshly deposited within the last 2 weeks; the watcher's 2026-06-29 scan (collected_at 2026-06-28T21:02–21:03 UTC = 2026-06-29 06:02–06:03 KST) ran on its normal 06:00 KST cadence and emitted 105 hits (~75 unique non-digested accessions after de-duplicating against id:22–id:26); the absence of fresh score-9 hits today vs. the prior week's run (id:22–id:26 each featured at least one score-9 dataset) signals a normal mid-week rotation through the higher-score queue, with all three today score-7 picks representing clean, well-reagent-supported translational opportunities across rare-disease nephrology, NHP-immunology infrastructure, and airway-stem-cell perturbation lanes --- ## 💼 Next Steps - **[Request bioinformatics / PKD-SPP1 brief](https://brownbio.tech/multiomics#brief)** - **[Request biotech infrastructure / NHP-MHC brief](https://brownbio.tech/services/biostatx#brief)** - **[Request bioinformatics / Mettl3 airway brief](https://brownbio.tech/multiomics#brief)** - **[View biostatx service](https://brownbio.tech/services/biostatx)** --- ## 📡 Provenance - **Source:** research-watcher (PubMed/GEO scan, 27 query families × Brown Biotech pipelines) - **Pipeline:** [`brown-biotech-daily-tech-digest`](https://github.com/ohbryt/brown-biotech-platform) — 06:00 KST cron - **Generated:** 2026-06-29 06:08 KST - **Repo:** `ohbryt/brown-biotech-platform` --- _Auto-published by `brown_biotech_research_digest_publisher.py` · [brownbio.tech](https://brownbio.tech) · Decision-ready research, daily._
Brown Biotech Research Digest — 2026-06-29
PubMed/GEO scan · research-watcher · 06:00 KST