chore: daily update 2026-09-12
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type: "Reference"
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title: "Literature Deep-Reads — cross-agent deep-read index"
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description: "Cross-agent index of Robin's literature deep-reads across the 4 vendor product lines (CelVivo / 3Brain / Cellink / Femtobiomed) and adjacent application domains (organoid IRB / ethics, vascularized organoids, microfluidic / organ-on-chip). Backed by the Obsidian vault 04-Literature/Deep-Reads/ and the flywheel-sync pipeline; synthesis pages are linked per paper."
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tags: [literature, deep-read, flywheel, celvivo, 3brain, cellink, femtobiomed, tevonian-2026-vascularized-liver-mps, yang-2026-cardiac-organoid-review, shen-2026-vascularized-organoids-review, zhai-2026-3d-skin-pemphigus, yan-2024-tmem106b-sars-cov2-brain-organoid, stewart-2023-ba5-xbb-neurotropic-brain-organoid, nguyen-2024-jev-g4-australia-brain-organoid, aiello-2025-brain-organoid-reproducibility, miao-2025-vascularized-lung-gut-organoids, pasca-2025-nature-assembloid, microgravity-reproductive-review-2026, 2026-08-31, 2026-08-27, 2026-08-25, 2026-08-24, 2026-08-23, vascularized-organoids, cardiac-organoids, skin-organoids, brain-organoid-virology-cluster, third-5paper-burst, celvivo-capital-v-parallel-subfolder]
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timestamp: 2026-08-27T18:25:00Z
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description: "Cross-agent index of Robin's literature deep-reads across the 4 vendor product lines (CelVivo / 3Brain / Cellink / Femtobiomed) and adjacent application domains (organoid IRB / ethics, vascularized organoids, microfluidic / organ-on-chip, brain-organoid ALI oxygen engineering, HGSC ovarian cancer precision medicine). Backed by the Obsidian vault 04-Literature/Deep-Reads/ and the flywheel-sync pipeline; synthesis pages are linked per paper. The 2026-09-11 fetch added 2 new entries after the **vault silence streak was broken** at 2026-09-10 (Tomas 2026 HGSC + Vijakumaran 2026 brain-organoid ALI oxygen engineering, the latter being the **first v4 Flywheel auto-sink pipeline entry**); the prior 2026-08-31 CelVivo cluster remains the most-recent vault activity for 11 calendar days before the 2026-09-10 / 2026-09-11 resumption."
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tags: [literature, deep-read, flywheel, celvivo, 3brain, cellink, femtobiomed, tevonian-2026-vascularized-liver-mps, yang-2026-cardiac-organoid-review, shen-2026-vascularized-organoids-review, zhai-2026-3d-skin-pemphigus, yan-2024-tmem106b-sars-cov2-brain-organoid, stewart-2023-ba5-xbb-neurotropic-brain-organoid, nguyen-2024-jev-g4-australia-brain-organoid, aiello-2025-brain-organoid-reproducibility, miao-2025-vascularized-lung-gut-organoids, pasca-2025-nature-assembloid, microgravity-reproductive-review-2026, tomas-2026-hgsoc-parpi-spheroid-organoid, vijakumaran-2026-brain-organoid-ali-oxygen-engineering, 2026-09-11, 2026-09-10, 2026-08-31, 2026-08-27, 2026-08-25, 2026-08-24, 2026-08-23, vascularized-organoids, cardiac-organoids, skin-organoids, brain-organoid-virology-cluster, third-5paper-burst, celvivo-capital-v-parallel-subfolder, flywheel-v4-auto-sink, vault-silence-broken, vault-resumed-after-11d, post-celvivo-burst-cluster-resumption]
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timestamp: 2026-09-11T18:14:00Z
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# Literature Deep-Reads — cross-agent deep-read index
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@@ -14,11 +14,17 @@ timestamp: 2026-08-27T18:25:00Z
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## Last 30 days of deep reads (mtime descending)
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### 2026-09-10 (HGSC ovarian-cancer PDO combination-therapy deep-read — non-vendor, PMC gold OA)
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### 2026-09-11 (Vijakumaran 2026 brain-organoid ALI oxygen engineering — first v4 Flywheel auto-sink pipeline entry)
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| DOI / slug | Vendor | Application | Title (short) | Vault path |
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| `vijakumaran2026-brain-organoid-ali-oxygen-engineering` | **TBD — vendor callout pending** (path is `Literature/Deep-Reads/Organoid/`, suggesting Robin classified it under brain-organoid culture-technique domain; NocoDB Id=3029; vendor mapping pending Tavily verification) | Brain organoid air-liquid interface (ALI) oxygen engineering | Vijakumaran 2026 **Air-liquid interface-centered oxygen engineering in human brain organoids** (NocoDB Id=3029; Wiki ID TBD; **first paper routed through the v4 Flywheel auto-sink pipeline** per the `09bec367` commit message `飞轮 v4 自动 sink`) — air-liquid interface (ALI) culture technique applied to human brain organoids to control oxygen exposure for neural maturation; the ALI-centered oxygen engineering pattern is structurally adjacent to CelVivo ClinoReactor (long-term stable oxygen-controlled organoid culture) + 3Brain HD-MEA (downstream functional validation via electrophysiology) + Mimetas OrganoPlate (ALI culture is the canonical Mimetas OrganoPlate use case for airway / lung / intestinal epithelia, now applied to brain organoid) — vendor-mapping step pending | `obsidian-vault/Literature/Deep-Reads/Organoid/vijakumaran2026-brain-organoid-ali-oxygen-engineering.md` |
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### 2026-09-10 (HGSC ovarian-cancer PDO combination-therapy deep-read — non-vendor, PMC gold OA — vault commit landed 2026-09-10)
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| DOI | Vendor | Application | Title (short) | Vault path |
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| --- | --- | --- | --- | --- |
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| `10.1080/15384047.2025.2611602` | **none — 0 product mentions** (spheroid = ULA static plate; organoid = Cultrex BME; no bioreactor/spinner) | HGSC patient-ascites iOvCa lines (n=6) as spheroids + organoids; carboplatin ± olaparib/niraparib direct vs sequential | Tomas EJ, Davis J, Ramos Valdes Y, Shepherd TG (2026) **Evaluating carboplatin and PARP inhibitor combination efficacy using high-grade serous carcinoma spheroids and organoids** (Cancer Biol Ther 27(1):2611602; Western University; PMID 41520277; PMC12795296 gold OA; Wiki.js 1787) — direct combination did NOT exceed carboplatin alone (no additivity/synergy); only exception = BRCA1-mutant iOvCa195 organoids benefit when PARPi given FIRST; niraparib more potent than olaparib except iOvCa256 (27.16 vs 18.09 µM); RAD51 foci functional HRD validation. Key "honest negative" for clinical-trial sequencing of PARPi-before-chemo in HRD patients | `obsidian-vault/04-Literature/Deep-Reads/tomas-2026-hgsoc-carboplatin-parpi-spheroid-organoid.md` |
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| `10.1080/15384047.2025.2611602` | **none — 0 product mentions** (spheroid = ULA static plate; organoid = Cultrex BME; no bioreactor/spinner) | HGSC patient-ascites iOvCa lines (n=6) as spheroids + organoids; carboplatin ± olaparib/niraparib direct vs sequential | Tomas EJ, Davis J, Ramos Valdes Y, Shepherd TG (2026) **Evaluating carboplatin and PARP inhibitor combination efficacy using high-grade serous carcinoma spheroids and organoids** (Cancer Biol Ther 27(1):2611602; Western University; PMID 41520277; PMC12795296 gold OA; Wiki.js 1787; **vault commit `1fd63019` 2026-09-10 — first vault commit since the 2026-08-31 CelVivo cluster**) — direct combination did NOT exceed carboplatin alone (no additivity/synergy); only exception = BRCA1-mutant iOvCa195 organoids benefit when PARPi given FIRST; niraparib more potent than olaparib except iOvCa256 (27.16 vs 18.09 µM); RAD51 foci functional HRD validation. Key "honest negative" for clinical-trial sequencing of PARPi-before-chemo in HRD patients | `obsidian-vault/04-Literature/Deep-Reads/tomas-2026-hgsoc-carboplatin-parpi-spheroid-organoid.md` |
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### 2026-08-31 (5-paper CelVivo-anchored single-shot LDR burst — NEW `CelVivo/` capital-V subfolder)
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