Ian's Noèsis Wiki

81 min read

Wiki Log

Reverse-chronological record of all wiki actions. Newest first — new entries are prepended at the top. Format: ## [YYYY-MM-DD] action | subject Actions: ingest, update, query, lint, create, archive, delete When this file exceeds 500 entries, rotate it.

[2026-11-02] update | Psychophysical harmony — added the This-Any / evolutionary-dissolution critique (Ape in the Coat 2026)

  • concepts/psychophysical-harmony.md: new §7 with three arguments from the essay — the This-Any fallacy (a generic “Any” harmony is treated as the specific “This” harmony; conservation of expected evidence), the evolutionary explanation of the judgement for non-epiphenomenalist views (including the Satan-scramble equilibrium problem), and the degree-of-harmony reply (a blissful world is non-harmonious yet compatible with omnibenevolence; actual partial harmony looks like fitness optimisation). Assessment paragraph extended and new footnote [
  • New raw (hash-verified): raw/articles/ape-in-the-coat-2026-psychophysical-harmony-this-any.md — full text of Ape in the Coat, “Psychophysical Harmony and This-Any Fallacy”, Postphilosophy, 23 Oct 2026 (image embeds and subscription widgets removed).
  • Frontmatter sources and updated bumped; index one-liner extended. No page-count change (164).

[2026-11-01] create | Near-eye eye tracking — new concept page + 10 raws (Pupil Labs Neon, NILT metaEye, Apple patents, Pezzoli 2026)

[2026-10-31] update | log references converted to clickable wikilinks

  • Converted 524 plain file references in every log entry — page paths (concepts, entities, comparisons), raw capture paths (articles, papers, transcripts), and SCHEMA/index mentions — into piped wikilinks. Display text is unchanged, so entries read exactly as before but every reference is now clickable. Self-references to this log were left as plain text; the one illustrative embed placeholder was put in a code span. All link targets were checked to exist on disk.

[2026-10-31] ingest | Gene therapy for vision restoration — new concept page + 13 raws (Luxturna → 2026 pipeline)

[2026-10-22] create | Perceptual power laws — JND, Weber, Fechner, Stevens, and the 2017–2026 revisions

[2026-10-19] create | Neural network interpretability — deep dive on the superposition debate

[2026-10-18] update | fine-tuning-argument: omnipotence/no-constraint objection (§10)

  • New raw: raw/transcripts/curator-omnipotence-objection-2026.md (curator’s formulation, 18 Oct 2026; six creation scenarios, three diagnostic questions, restricted-creator dilemma; hash verified).
  • Page: concepts/fine-tuning-argument.md — new §10 “Theism does not constrain the kind of universe (the omnipotence objection)” (God can create life with hostile constants, wide ranges, no constants, all-permitting constants, or no laws; theism selects none; naturalism makes the dependence of life on constants non-negotiable; heaven as an internal counterexample; the restricted-creator dilemma; status as a constraint objection); §2 now points to §10; footnote [^13]; frontmatter sources.
  • index.md: fine-tuning-argument summary extended with the omnipotence/no-constraint objection.

[2026-10-18] update | fine-tuning-argument: cosmological constant is a naturalness problem, not a life-tuning

  • New raws: raw/articles/makelyingwrongagain-joe-schmid-cc-2026.md (full post, “Joe Schmid’s Fine-Tuning Argument Backfires”, Make Lying Wrong Again, 11 Oct 2026; superscripts flattened by the extractor restored to 10^120 from the page HTML; hash verified); raw/papers/adams-2019-degree-fine-tuning-excerpt.md (excerpt: §1 sensitive-vs-hierarchical taxonomy, §4.1–4.2 CC problem and structure-formation bounds, Table 2, §10.4 “smaller vacuum energy”; arXiv:1902.03928; hash verified).
  • Page: concepts/fine-tuning-argument.md — new §9 “The cosmological constant: a naturalness problem, not a life-tuning” (10^120 is the QFT-vacuum naturalness gap, not a life-permitting range; λ spans 10+ decades upward with all lower values allowed, zero/negative Λ viable, smaller Λ favouring structure formation; Weinberg 1987 + Martel–Shapiro–Weinberg 1998 anthropic prediction; the multiverse-over-bare-theism likelihood backfire; caveats on the naturalness reading and the measure problem); flagged the flagship CC example in “The supporting case”; footnotes [^11] [^12]; frontmatter sources + updated.
  • index.md: fine-tuning-argument summary extended; header “Last updated” → 2026-10-18 (page count unchanged at 160).

[2026-10-11] ingest | Hofstadter, “I Am a Strange Loop” (2007) — book page + 14 section raws

  • New page: concepts/i-am-a-strange-loop-book.md — the self as a self-referential “strange loop” of brain symbols; souls in degrees (“hunekers”); levels and patterns (careenium, domino chainium), feedback “locking-in”, Gödel’s self-reference as the template; entwinement (“we live in each other”); consciousness = thinking; the zombie dialogue (“Two Daves”, élan mental); free will; magnanimity; the Epilogue’s quandary. Book: Basic Books 2007 (ISBN 978-0-465-00837-7; 2007 LA Times Book Prize for Science and Technology).
  • New raws (14, converted from the user-provided EPUB, hash-verified): raw/papers/hofstadter-2007-strange-loop-{preface-and-prologue, ch1-souls-and-their-sizes, ch2-teetering-bulb, ch3-causal-potency-of-patterns, ch5-on-video-feedback, ch6-selves-and-symbols, ch10-godels-loop, ch12-downward-causality, ch13-elusive-apple-of-my-i, ch14-strangeness-in-the-i, ch16-deepest-mystery, ch19-consciousness-equals-thinking, epilogue, soul-selections}.md
  • Cross-links: what-is-intelligence-book (Related Pages bullet), chinese-room-argument (systems-reply sentence + See Also), dualism (Relationship list bullet), emergence (See Also bullet). SCHEMA: +strange-loop, +self-reference. index.md: 159 → 160.

[2026-10-06] ingest | TDK meta-optic mirror DRP display for smart glasses (XR Vision newsletter + TDK press release)

  • New raws: raw/articles/xrvision-tdk-metasurface-drp-2026.md (English translation of the XR Vision WeChat newsletter, 3 Oct 2026 — TDK lead story + brief Rokid/Krys Opticiens France and Ray-Ban Meta India items) and raw/articles/tdk-meta-optic-mirror-drp-press-release-2026.md (full text, TDK press release, 2 Oct 2026). Both hash-verified.
  • New page: entities/tdk.md — TDK (TSE:6762); 150-nm in-lens meta-optic mirror, ~80% see-through; FCLM full-colour laser module + 4K visible-light laser controller; monochrome demo, full colour + mass production planned; QD Laser (TSE:6613) business cooperation for RGB light-source modules and optical engines; prototypes at CEATEC 2026 (from 13 Oct) and electronica (10–13 Nov). Figures: prototype + annotated glasses (raw/assets; TDK via XR Vision).
  • concepts/augmented-vision.md: new “Meta-optic mirrors (2026)” block in the direct-retinal-projection section + mirror schematic figure; product-map row; See Also; sources; footnotes [^24] [^25]. concepts/smart-glasses.md: See Also -> tdk. SCHEMA.md: tag metasurface-optics added (Technology). index.md: 158 -> 159 pages; “Last updated” -> 2026-10-06.

[2026-10-04] ingest | Norton “The Metaphysics of Causation: An Empiricist Critique” (2024) — raw capture + 5 cross-linked pages

  • New raw: raw/papers/norton-2024-metaphysics-causation.md — full text from the author’s final PDF (sites.pitt.edu; 18 pp); published as ch. 4, pp. 58–94 in Yafeng Shan (ed.), Alternative Approaches to Causation: Beyond Difference-making and Mechanism (OUP, 2024), doi:10.1093/oso/9780192863485.003.0004. Publisher text-layer artifacts repaired against the clean PhilSci-Archive preprint (glyph substitutions + two sentences with scattered fragments); hash verified.
  • Linked from: entities/john-d-norton (expanded causation passage, footnote [^5]); entities/james-woodward (new “An Empiricist Reading (Norton 2024)” section, [^2]); entities/jaegwon-kim (exclusion-debate passage, [^2]); entities/david-hume (new “Causation” section + See Also, [^2]); concepts/emergence (interventionist-response deflation + See Also, [^4]). All five: sources appended, updated bumped to 2026-10-04.
  • index.md: “Last updated” bumped to 2026-10-04 (a parallel session had set 2026-09-30).

[2026-09-30] update | cognitive-testing-patents: added CN109566447A + CN219421883U (NHP laboratory systems)

  • User-supplied IDs verified against Google Patents /en records before writing; neither previously on the page. Both are Chinese non-human-primate laboratory cognitive-testing patents.
  • New raws (canonical sha256 formula): raw/articles/patent-cn109566447a-amms-nhp-touchscreen-2019.md (sha256 1965d3f26563a8b7…), raw/articles/patent-cn219421883u-hainan-nhp-cage-testing-2023.md (sha256 b60ddca7f1b40cf9…).
  • Page updates: two entries (dimension tables + summary paragraphs + Sources lines) with footnotes [^15], [^16]; sixth-batch paragraph in “Dimensions of comparison”; two new brain-recording table rows; synthesis sentence; References links; frontmatter sources extended.
  • CN109566447A — Institute of Pharmacology and Toxicology of AMMS: multi-modal NHP rig (touchscreen + eye tracker + 4-camera hand tracking + wireless EMG; synchronisation with external neural recording). CN219421883U — Hainan University: third transfer-free home-cage NHP device; 8-macaque DMTP worked example.
  • index.md summary refreshed (14 → 16 entries; Last updated 2026-09-30).

[2026-09-30] update | cognitive-testing-patents: Google Patents links for all 14 entries

  • Added a - *Sources:* line with the English (/en) Google Patents URL to every one of the 14 patent entries; link labels mirror the References lines. All 14 URLs status-checked first (14/14 HTTP 200).
  • References section converted from bare URLs to working markdown links (whole-citation links per the house reference convention).
  • Page updated bumped to 2026-09-30; no other content changed.

[2026-09-30] update | log.md reordered — newest first (reverse-chronological)

  • log.md rebuilt in reverse-chronological order (user request): all 92 existing entries reversed so the newest sit at the top; entry contents preserved verbatim; separator blank lines normalised to one.
  • 15 entries in the 2026-09-11→15 region were repositioned into strict date groups — the list is now strictly descending by date.
  • Convention updated: new entries are prepended at the top of the file. Log header + SCHEMA.md rule updated; agent skills updated (wiki-link-hub, wiki-maintenance, ai-scientist-wiki-curation) — supersedes the bundled llm-wiki “append to log.md” wording.

[2026-09-29] patent-add | CN118592356A (Institute of Biophysics, CAS) -> cognitive-testing patents

  • Added entry: CN118592356A “Animal cognitive training system, animal cognitive training method and virtual device” (filed 2024-08-08, published 2024-09-06, pending CN) — two-tier remote-operated NHP touchscreen training system (remote upper control machine; local lower execution machine in the animal room; water/fruit rewards; system + method + virtual-device claims). English-only (pinyin inventor names: Jiang Liuming, Liu Ning, Liang Zhen).
  • New raw: raw/articles/patent-cn118592356a-ibp-nhp-cognitive-training-2024.md (hash verified with the wiki-verify formula).
  • Page updates: fifth-addition paragraph, brain-recording table row, synthesis sentence; references + footnote [^14]; sources frontmatter; index summary line 13 -> 14 entries.

[2026-09-29] patent-add | Cognitive-testing patents: CN112022091A + CN114532247A (SIAT, CAS)

  • Added two entries to concepts/cognitive-testing-patents.md: CN112022091A (animal behaviour box for innate-fear/arousal research: optogenetics, IR + visible-light video, anaesthetic-gas handling; filed 2019-06-04, pending) and CN114532247A (in-cage NHP cognitive testing system: touchscreen suspended on the home cage, liquid reward, remote monitoring; filed 2020-11-20, pending). Both verified on Google Patents; assignee Shenzhen Institute of Advanced Technology, CAS; inventor names are pinyin transliterations of the CN record (no English-language family member identified).
  • New raws: raw/articles/patent-cn112022091a-siat-animal-behavior-system-2020.md, raw/articles/patent-cn114532247a-siat-cognitive-testing-2022.md (both hash-verified).
  • English-only pass on request: removed Chinese-character parentheticals from the page (Kunming, Aceral entries) and re-hashed the two matching CN patent raws.
  • Page updates: fourth-batch paragraph + two brain-recording table rows + synthesis sentence; references + footnotes [^12]/[^13]; index summary line refreshed (13 entries).

[2026-09-29] ingest | Metacognition — new concept page + 9 raws (Fleming 2026 Nat Rev Neurosci)

[2026-09-29] verify | Autocage (Hao et al. 2021) — integrity pass on repeat request

  • Raw capture re-hashed with the canonical formula: matches. raw/assets/hao-2021-autocage-fig1.jpg visually confirmed as Figure 1; live at /raw/assets/hao-2021-autocage-fig1.jpg (HTTP 200, sha256 match, embedded correctly from the deployed page).
  • concepts/automated-cognitive-testing-devices.md: 30/30 wikilinks resolve; footnotes [^1]–[^28] complete; figure caption normalized to the house blockquote idiom (“Fig. 1 …” + “CC BY 4.0.” tail).
  • index.md: “Last updated” bumped to 2026-09-29 (summary line already carried Autocage from the ingest above).

[2026-09-29] ingest | Autocage — Hao, Thomas & Li (eLife 2021), with Figure 1

  • Source (user-supplied): https://elifesciences.org/articles/66112 — “Fully autonomous mouse behavioral and optogenetic experiments in home-cage” (Hao, Thomas & Li, eLife 10:e66112, 2021; CC BY 4.0). The system is Autocage (Baylor College of Medicine, Nuo Li lab; open hardware/software at github.com/NuoLiLabBCM/Autocage).
  • Raw capture (sha256-verified): raw/papers/hao-2021-fully-autonomous-home-cage.md (main text through Data availability; refs/metadata/figures omitted, noted); Figure 1 saved to raw/assets/hao-2021-autocage-fig1.jpg (2317×1525, from the eLife iiif asset) and embedded on the page with attribution.
  • Updated concepts/automated-cognitive-testing-devices.md: new Autocage subsection in the in-cage section (voluntary head-fixation home-cage training + clear-skull optogenetics; 113 mice / 1.92M trials; cortex–striatum–SC survey; open availability) + Figure 1 embed; Autocage added to the lineages sentence and the comparison table; footnote [^28] + reference; sources and updated bumped.
  • index.md: summary line extended; no page-count change (157).
  • Note: the workflow extends the same “no human involvement” lineage as ARTS/AutonoMouse to difficult decision-making and optogenetic testing.

[2026-09-28] ingest | ARTS + EthoPy — two systems added to the automated cognitive-testing devices page

  • Sources (user-supplied URLs): Poddar, Kawai & Ölveczky 2013, “A Fully Automated High-Throughput Training System for Rodents” (PLOS ONE 8(12):e83171 — the ARTS system; open access) and Evangelou et al. 2025, “EthoPy: Reproducible Behavioral Neuroscience Made Simple” (bioRxiv 10.1101/2025.09.08.673974; preprint).
  • Raw captures (sha256-verified): raw/papers/poddar-2013-arts-automated-rodent-training.md (full article incl. cleaned reference list) and raw/papers/evangelou-2025-ethopy.md (main text + methods + supplementary listing; reference list omitted, noted in capture).
  • Updated concepts/automated-cognitive-testing-devices.md: new ARTS subsection in the in-cage section (architecture, hardware/cost, validated tasks, benchmarks, legacy) + new EthoPy subsection and framework-table row (modules, DataJoint storage, validated mice tasks, relations); both added to the lineages sentence; ARTS row in the comparison table; refs [^26]–[^27] + references; sources and updated bumped.
  • index.md: summary line extended; no page-count change (157).
  • Note: EthoPy cites ARTS (2013) as a rare predecessor with scalable data management; both entries positioned relative to the existing families (home-cage training; open-source control frameworks).

[2026-09-28] ingest | Norton, “You are not a Boltzmann Brain” (IJQF 2022) — criticisms added to the Boltzmann brain page

  • Raw capture (sha256-verified): raw/papers/norton-2022-you-are-not-a-boltzmann-brain.md — full paper text from the author’s PDF; superscripts restored in caret notation (10^24, 10^10, 2^365) after visual verification against the rendered pages; “Poincaré recurrence” spacing repaired; capture note inserted.
  • Updated concepts/boltzmann-brain.md: new section “John Norton’s criticisms (2022)” — the “extra step” beyond Boltzmann’s original argument; the recurrence-argument failure (finite phase space / degrees of freedom; quantum caveats); the time-reversal-argument failure (turning-point and initiation problems; weak interaction; measurement collapse); Myrvold’s self-defeat point (endorsed, not relied on); the “batty brains” counting argument (2^365). Sources + footnote [^5] + references + john-d-norton relationship bullet; updated bumped.
  • Updated entities/john-d-norton.md: Boltzmann-brain work under History and philosophy of physics; boltzmann-brain related bullet; source + footnote [^4]; updated bumped.
  • index.md: boltzmann-brain summary extended; date bumped (no page-count change; 157 on disk).
  • Note: the four flattened numerals (10^24 ×2, 10^10, 2^365 ×2) were confirmed by inspecting rendered PDF pages before writing the raw.

[2026-09-26] ingest | Dualism — SEP “Dualism” (Robinson & Weir, substantive revision Oct 2025) — new concept page

  • Raw capture (sha256-verified): raw/articles/sep-dualism-2026.md (137 KB; SEP main text + bibliography, navigation/citation-tool/footer blocks omitted; capture note inserted).
  • New page concepts/dualism.md: the mind-body problem and dualism’s place among the responses (materialism, idealism, panpsychism; survey figures); history (Indian, Greek, Abrahamic, mechanistic science → Descartes → the Great Revolt → property-dualism revival); varieties (substance; property [predicate vs property]; interactionism; epiphenomenalism; parallelism; hylomorphic); arguments (knowledge, conceivability [disembodiment/zombie], personal identity, Aristotelian in modern form, predicate→property, property→substance); problems (queerness, unity, interaction).
  • Cross-links: dualism backfilled in concepts/psychophysical-harmony.md and entities/{gottfried-wilhelm-leibniz, john-searle, michael-polanyi, p-w-anderson, paul-humphreys}.md; See-Also/related bullets added on concepts/{emergence, chinese-room-argument, psychophysical-harmony}.md and entities/{gottfried-wilhelm-leibniz, john-searle}.md; updated dates bumped on all eight existing pages touched.
  • SCHEMA.md: +dualism tag (Philosophy line). index.md: +1 page (157).
  • Note: all quotations verified verbatim (whitespace-normalized) against the raw capture before embedding.

[2026-09-25] ingest | John D. Norton — The Material Theory of Induction (chapters, profile, Lakatos Award)

[2026-09-25] ingest | Kolmogorov probability axioms (Aldous + Wikipedia) — new concept page

  • Created concepts/kolmogorov-probability-axioms.md — the three axioms and the probability space (Ω, F, P); elementary consequences (complement, monotonicity, inclusion–exclusion, continuity); significance against Hilbert’s sixth problem and measure theory; the interpretation gap (Cox’s theorem, Dutch book arguments); Aldous’s critique of real-world applicability (prespecification, second-order uncertainty, model vs. observation).
  • Raw captures (sha256-verified): raw/articles/aldous-kolmogorov-axioms-significance.md (full text) and raw/articles/wikipedia-probability-axioms-2026.md (main text + reference list; extraction artifacts cleaned).
  • Relations: new page wired to fine-tuning-argument (the measure problem), post-hoc-probability-fallacy, bayesian-apologetics and subjectivity-of-priors; reciprocal bullets added to the first three.
  • SCHEMA.md: +measure-theory under Probability & Reasoning. index.md: +1 page (154); corrected the misplaced buddhist-metaphysics entry (alphabetical order within Philosophy).

[2026-09-24] ingest | Smart glasses — Zhang et al. 2026, “From Seeing to Acting” (arXiv:2608.24877)

  • Raw capture (sha256-verified): raw/papers/zhang-2026-smart-glasses-first-person-intelligence.md — full text of the arXiv HTML v1 (artifact-normalized, references included); figure images for Figs. 1–5 saved to raw/assets/zhang-2026-smart-glasses-fig01–05-*.png.
  • Updated concepts/smart-glasses.md: new section “Smart Glasses as First-Person Intelligence Platforms (Zhang et al., 2026)” — claim-conditioned capability thesis; three eras / four product routes; eight hardware capability axes; seven foundational capabilities and the L0–L5 ladder; nine application scenes; deployment framework, evidence ladder, challenges and roadmap; five attributed figure embeddings (Figs. 1–5).
  • index.md: smart-glasses summary line extended (no page-count change).
  • Requested by user: update the page from the article and include figures. Figures downloaded from the arXiv HTML and visually verified before embedding.

[2026-09-23] ingest | Emergence — Carroll & Parola, “What Emergence Can Possibly Mean” (arXiv:2410.15468) + Wikipedia “Emergence”

  • Raw captures (sha256-verified): raw/papers/carroll-2024-what-emergence-can-possibly-mean.md (425fab0de7832698cdc0f5b34dca311a…, arXiv HTML v1 capture; LaTeX render-duplicates collapsed to plain text, inline citations [n], footnote markers [fn#]; note records normalization), raw/articles/wikipedia-emergence-2026.md (f78187e551472a54322c918b7bdf9d4e…, main article text incl. the “Macro-level and micro-level relations” subsection).
  • Updated concepts/emergence.md: new section “Levels of Emergence: Carroll & Parola’s Types 0–3” — commuting-map framework (states + evolution rules; coarse-graining Φ; subsystem decomposition; algorithmic compressibility), Types 0/1a/1b/2/3 with examples (classical limit/Ehrenfest; fluids; Game of Life gliders; mental states/treaty/jerk + filter function; augmented strong emergence); lineage + core reading + related sean-carroll + sources/footnotes [^2][
  • Updated entities/sean-carroll.md: emergence taxonomy in Physics bullet; emergence cross-link; source list + footnote [^4]. index.md: emergence entry description extended.
  • Note: co-author name verified as “Achyuth Parola” (arXiv HTML capture prints “Achyth”); quotations verified against the raw captures before embedding.

[2026-09-23] ingest | Boltzmann brain — Wikipedia article + Phil Halper interview with Sean Carroll (quantum cyclic cosmology)

  • Raw captures (sha256-verified): raw/articles/wikipedia-boltzmann-brain-2026.md (24732bcd6b71854e4f58ddfc44e585f6afee9ff2f62020dcaeec7132c54ad28f; main article text, superscript exponents restored in caret notation), raw/transcripts/phil-halper-quantum-cyclic-cosmology-carroll.md (55d69c7b593412930dc1413b5360819de69f549aca496c097d39d78d7e99957d; YouTube auto-captions with rolling duplicates collapsed; full 71-min interview discussing Carroll, Diachenko & Dulani, “Toward a Phenomenologically Acceptable Quantum Cyclic Universe”, arXiv:2605.30405).
  • New concept: concepts/boltzmann-brain.md — Boltzmann’s 1896 fluctuating universe and Eddington’s 1931 counting argument; formation mechanisms (quantum fluctuation ~10^(10^50) yr; nucleation ~10^(10^69) yr); modern measure-problem status; Sean Carroll’s cognitive-instability analysis (2014/2017); the 2015 infinite-dimensional and 2026 finite-dimensional Hilbert-space loopholes (exact quantum recurrence as Boltzmann-brain avoidance).
  • Updated: concepts/fine-tuning-argument.md (Boltzmann-brain wikilink backfill + related link), entities/sean-carroll.md (2026 proposal added to profile; related link + source + footnote 3), SCHEMA.md (+cosmology, +thermodynamics), index.md (153 pages).
  • Note: arXiv metadata verified via API (1702.00850 Why Boltzmann Brains Are Bad; 1505.02780 Boddy-Carroll-Pollack).

[2026-09-23] update | Lint backlog cleanup — broken link, SCHEMA tags, PPH section merge; oversized pages retained (no-split policy)

[2026-09-23] ingest | Post-hoc probability fallacy (Bailey, Math Scholar) — fine-tuning / PPH / Bayesian cross-links

  • Sources: David H. Bailey, “Do probability arguments refute evolution?” (Math Scholar, 3 Jan 2020; updated 30 Sep 2025) and its companion “Aliens made this rock: The post-hoc probability fallacy in biology, finance and cosmology” (Math Scholar, 11 Oct 2023; updated 26 Jul 2025).
  • Raw captures (sha256-verified; superscript exponents restored in caret notation from source HTML): raw/articles/mathscholar-bailey-post-hoc-probability-2020.md (f19f09e9c11543873e8b983a76cef0c7a20959b73084451c178989d42262d5d6), raw/articles/mathscholar-bailey-aliens-made-this-rock-2023.md (7a541efe0d6abf86a9367c8df0e02bd021241bc57c097c5e83fe83e4619fd743).
  • New concept: concepts/post-hoc-probability-fallacy.md — definition and three-step structure; rock, card-deal and alpha-globin illustrations; nullification key point; institutional safeguards (preregistration, blinding, data holdout / backtest overfitting); application sections to the fine-tuning argument (Bailey’s own 2023 cosmology essay: measure problem, one universe), the psychophysical harmony argument, and Bayesian reasoning; aliases.
  • Updated: concepts/fine-tuning-argument.md (new critical-argument section 7 + related link + 2 sources + references + footnotes 8-9), concepts/psychophysical-harmony.md (section 2(d) + related & See Also links + source + footnote 5), concepts/bayesian-apologetics.md (critique 5 + See Also + source + footnote 2), concepts/subjectivity-of-priors.md (new section + See Also + source + footnote 2), concepts/dwindling-probabilities.md (See Also), comparisons/reasoning-methods.md (See Also).
  • index.md: +1 concept page (total 152 on disk).
  • Note: the 2020 essay’s own target is anti-evolution probability arguments; the cosmology application is Bailey’s own extension in the 2023 companion (measure problem / one-universe sample). Also normalized 48 legacy bullet lines in this log that carried stray pipe prefixes from an earlier patch.

[2026-09-21] update | Stop-signal page: saccadic double-step variant added

  • Added the double-step task as a variant on concepts/stop-signal-task.md: variants-table row (T1/T2 design, target step delay, TSRT race-model analogue), error-monitoring sentence (schizophrenia: TSRT 186 vs 147 ms; exaggerated post-step adjustments correlated with positive symptoms), cross-species table note; +footnote 12, aliases, sources.
  • 1 raw capture (sha256-verified): thakkar-2015-double-step-schizophrenia (PMC4396187 author manuscript; Schall/Logan/Park collaboration).
  • Resynced & republished (151 pages).

[2026-09-21] create | Stop-signal task — detailed page + cluster relationship validation

  • New page: concepts/stop-signal-task.md — response-cancellation family deep dive: race model & SSRT estimation; variants (global, selective stopping, anticipatory response inhibition, go/no-go, change-signal, anti-saccade, countermanding); consensus recommendations + SeleST open-source toolbox + CANTAB SST; neural mechanisms (FEF/SC monkey countermanding; contested human rIFC/STN accounts; ERN & error monitoring per Fu et al. 2023; rat OF/STN lesion dissociations); clinical meta-analyses (ADHD g=0.62 / OCD 0.77 / SCZ 0.69; autism SSRT largely normal); explicit validated relations to reversal learning, IED, bandit, Flanker/interference control and RVP pages.
  • Updated (relationships + links): reversal-learning (cancellation-vs-switching bullet), nonverbal-cognitive-tasks (inhibition row + related link), autism-nonverbal-cognitive-tasks (construct note + footnotes 40–41 + related link), entities/cantab.md (new “Executive Function & Impulse Control” section incl. SST + source), two-armed-bandit-task (impulsive choice vs action + link), SCHEMA.md (+response-inhibition, stop-signal, impulsivity, error-monitoring tags), index.md (150 → 151).
  • 10 raw captures (sha256-verified): verbruggen-2019 (consensus guide), schall-godlove-2012 (stopping review), fu-2023 (error-monitoring review), wadsley-2023 (SeleST toolbox paper), lipszyc-2010 (SST meta-analysis), geurts-2014 (ASD inhibition meta-analyses), eagle-2008 (rat SST lesions), bari-robbins-2013 (inhibition/impulsivity review), cambridgecognition-stop-signal-task-sst (article), seleist-toolbox-github (article).

[2026-09-21] create | Reversal learning — detailed task page + cluster cross-links

[2026-09-21] create+update | Autism non-verbal cognitive tasks — deep dive (human tasks → Shank3 mouse/monkey translation)

  • New page: concepts/autism-nonverbal-cognitive-tasks.md — which language-free tasks best distinguish ASD in humans (EF/working memory, social-attention eye-tracking, probabilistic reversal learning, NIH-Toolbox fluid profile), the battery layer (CANTAB-ASD sample battery, NIH Toolbox Cognition Battery, ABC-CT eye-tracking/EEG battery), and translation to mouse (Shank3 lines, BTBR; touchscreen discrimination/reversal) and monkey models (SHANK3 macaques incl. 2026 F1 cohort, MECP2, VPA macaque/marmoset), with a cross-species task map and 2023–2026 literature highlights.
  • Updated: concepts/nonverbal-cognitive-tasks.md — broadened from “for Depression” into a cross-condition hub (depression content retained; new ASD section with task-map table linking the deep dive); entities/cantab.md — ASD battery section (ERT/MTS/MTT/OTS/PAL/RTI/SWM; Steele/Ozonoff/Matsuura) + new source + cross-links; concepts/automated-cognitive-testing-devices.md — Bussey-Saksida ASD-model note + refs [^24]–[^25] + cross-links; SCHEMA.md — +autism, +social-cognition tags; index.md — 148 → 149 pages.
  • 38 raw captures (sha256-verified; full-text slices from extraction caches where open, abstract-level records otherwise): jones-2021, solomon-2020, shic-2022, jones-2023, wen-2022, tecar-2025, shic-2023, dcruz-2013, schmitt-2021, steele-2007, ozonoff-2004, matsuura-2014, demetriou-2018, lage-2024, kofler-2024, rodgaard-2019, yeung-2022 (human); silverman-2010, ornoy-2024, delling-2021, copping-2016, pearson-2026, alvarez-2023, bauer-2022, zhou-2019, tu-2019, jiang-2026, liu-2016, zhao-2019, watanabe-2021, nakagami-2022, qin-2019, vanderlip-2026, nithianantharajah-2015, palmer-2021, martins-2025 (models); cantab-autism-battery-2026, nih-toolbox-cognition-battery-2026 (vendor pages).

[2026-09-19] create | Buddhist metaphysics — new concept page (SEP deep dive) + 2 entities + relations

  • New concept page: concepts/buddhist-metaphysics.md — Buddhist ontology across schools (SEP-sourced): shared core (impermanence, dependent arising, not-self); two truths; Abhidharma dharmas/svabhāva/momentariness (Theravāda 82, Sarvāstivāda 75, “all exists”); Madhyamaka emptiness and the Svātantrika/Prāsaṅgika split; Yogācāra mind-only and three natures; Dignāga–Dharmakīrti nominalism; buddha-nature, Huayan and Tiantai; Tibetan two-truths debates; contemporary reception.
  • 2 entity pages: entities/nagarjuna.md, entities/vasubandhu.md.
  • 12 SEP raw captures (full-text, hash-verified): sep-nagarjuna, sep-madhyamaka, sep-vasubandhu, sep-abhidharma, sep-yogacara, sep-dharmakirti, sep-two-truths-india, sep-two-truths-tibet, sep-mind-indian-buddhism, sep-tiantai-buddhism, sep-huayan-buddhism, sep-chinese-metaphysics.
  • Relations added to existing pages (user request): agrippas-trilemma (regress/anti-foundationalism), emergence (persons/aggregates, dependence without reduction), possibilism-actualism (scope of existence; Sarvāstivāda “all exists”), ontological-arguments (necessary being vs emptiness), modal-logic (catuskoti vs non-classical negation).
  • SCHEMA: +buddhism, +ontology, +madhyamaka, +yogacara, +abhidharma; Domain line notes Buddhist/comparative philosophy.
  • Index: 145 → 148 pages.

[2026-09-19] ingest | Kim & Seo 2025 — Advances in artificial vision systems (Biomed Eng Lett review)

  • Source: Kim J, Seo J-M. “Advances in artificial vision systems: a comprehensive review of technologies, applications, and future directions.” Biomed Eng Lett 15:1033–1050 (2025). DOI 10.1007/s13534-025-00513-4 (open access, CC BY 4.0).
  • Raw capture: raw/papers/kim-2025-artificial-vision-review.md — full text (abstract; epiretinal/subretinal/suprachoroidal device families; optic-nerve and cortex stimulation; recent trends; discussion; 100 refs; funding/author/ethics/license), web artifacts stripped; sha256 6c2b0b0d6cc3891db6e5dd50ad9c4822ed13a3d3ed292ef957acfe842860def3.
  • 14 figures captured to raw/assets/kim-seo-2025-fig01…fig14-*.png (full-size from Springer media; content verified visually via contact sheet; CC BY 4.0).
  • Image placement: visual-prosthesis.md — Figs. 1 (four stimulation sites), 2 (Argus II architecture), 7 (OpticSELINE); retinal-prosthesis.md — Figs. 3–6 (device survey) and 8–14 (engineering trends); no figures for the cortical page (the review has no cortex figures).
  • concepts/visual-prosthesis.md: + “Optic-nerve stimulation” section (four-sites framing; Veraart cuff; OpticSELINE; AV-DONE thresholds), + “What limits artificial vision (2025 review)” (resolution vs channel count; device survival; site trade-offs; field priorities); “Shared design language” illustrated with the Argus II template (Fig. 2); timeline +2015 STS and +2023 ICVP; H1/frontmatter retitled (Retina + Optic Nerve + LGN + Cortex); sources += [
  • concepts/retinal-prosthesis.md: + “Device survey (Kim & Seo 2025)” (epiretinal: Argus II, IRIS II, NR600, iBIONICS, IMIE 256, EPI-RET3; subretinal: Alpha IMS, PRIMA, Boston RI, HARP4k; suprachoroidal: BVT Gen2, Phoenix99, STS NIDEK) and + “Recent engineering trends” (flexible materials/packaging, photovoltaic materials, 3D-structured confinement electrodes) with 11 figures; sources += [
  • concepts/cortical-visual-prosthesis.md: + ICVP 2023 bullet (wireless floating microelectrode arrays, 6 electrodes per 2 × 2 mm module); Orion encoding note; sources += [
  • SCHEMA.md: +optic-nerve tag (Technology). index.md: summary lines for the three pages updated; no page-count change (145).
  • Note: retinal-prosthesis.md now 491 lines (was 369) — well above the 200-line split threshold; candidate for a future split (device survey + trends into a companion page). visual-prosthesis.md now 166 lines.

[2026-09-18] create | Wigain (Qiuguo Plan) — silicon-carbide waveguide XR glasses company

[2026-09-17] update | Paper2Agent: full-text raw capture (open access)

  • Added raw/papers/miao-2026-paper2agent.md — full text of Miao, Davis, Zhang, Pritchard & Zou, “Reimagining research papers as interactive and reliable AI agents,” Nature (16 Sep 2026), captured from the publisher’s open-access (CC BY-NC-ND 4.0) version: abstract, main text (AlphaGenome / Scanpy / TISSUE case studies, large-scale evaluation, AI co-scientist collaboration), Methods, data/code availability, references (46), acknowledgements, author info, ethics, peer review. Cleaned of web artifacts (inline ref links simplified, figure images dropped with captions kept, recommendation widgets removed); sha256 29232be14fcea334a12650b5bbba109bd2bb9f786aff5e147169be5f4cbc4626 (~74k chars).
  • Updated: concepts/ai-scientist.md (sources frontmatter + entry note + author order corrected), log.md.

[2026-09-17] update | AI Scientist wiki: Paper2Agent (Nature)

  • Added Paper2Agent entry to concepts/ai-scientist.md (Core Systems & Papers) from Miao et al., “Reimagining research papers as interactive and reliable AI agents,” Nature, 16 Sep 2026 (open access; DOI 10.1038/s41586-026-11044-y).
  • Verified all three supplied links: Nature paper (abstract + full text from cache); GitHub jmiao24/Paper2Agent (API-verified: MIT, 2,772 stars, 402 forks, Python); live site https://paper2agent.ai/ (“Agentify Scientific Knowledge” demo agent).
  • Entry records: Paper2MCP remote MCP-server construction (tools/resources/prompts); multi-agent build pipeline (environment + extraction agents, testing agent; iterative validation against reference outputs, tools locked vs code hallucination); case studies — AlphaGenome agent (98.7–100% benchmarks vs Claude+Repo 83%, Biomni 37–56%; 22 tools in ~45 min/$14), Scanpy + TISSUE agents, three-agent collaboration prioritizing GPR137 for psoriasis (rs887314); large-scale evaluation (74/100 comp-bio papers agentified; 593/599 tools validated; 91.2% vs 80.3%).
  • Updated: concepts/ai-scientist.md (entry + date; “As of September 2026”), log.md. No raw source captured because this was a link-hub update.

[2026-09-16] update | Index: split “Philosophy & Methodology” into “Philosophy” + “Methodology”

  • Split the combined ”# Philosophy & Methodology” subsection of the Concepts index (26 entries) into two lists:
    • ”# Philosophy” — 22 entries (epistemology, logic, metaphysics, theology/apologetics, philosophy of mind, linguistics).
    • ”# Methodology” — 3 entries: ai-scientist, deepevidence, omniscientist (the scientific-method-tagged AI-research pages).
  • Relocated “cognitive-testing-patents” from the split section to ”# Intellectual Property” (alongside chinese-patent-system, chinese-patent-application-writing, visual-prosthesis-patents) — it is a patent-landscape page.
  • Updated: index.md, log.md. No page-count change (144).

[2026-09-16] create | Automated cognitive-testing devices for animals — new concept page + 5 entities (deep dive)

[2026-09-16] update | Cognitive testing patents — batch 3: lab animal + deep search (4 new entries, 7→11)

  • 4 new patent entries added to concepts/cognitive-testing-patents.md:
    • US20220207902A1 (Harvard/Datta, withdrawn) — automated mouse behaviour phenotyping via depth camera + ML clustering; animal (mouse); no brain recording. The Datta Lab / DeepLabCut ecosystem.
    • AU2022409850A1 (PGI Drug Discovery, ceased AU) — rodent drug screening with pharmacological EEG (pEEG) + behavioural monitoring + ML drug classification; animal (rodent); YES brain recording (pEEG, primary modality). First patent in collection with both rodent subjects AND brain recording.
    • US20180007862A1 (University of Toronto/Bonin/Mogil, abandoned) — rodent home-cage lid-interaction behavioural monitoring; animal (rodent); no brain recording. Home-cage monitoring approach.
    • CN205357588U (Kunming Institute of Zoology/CAS, expired) — NHP touchscreen test cage water reward apparatus; animal (non-human primate); no brain recording. Rare NHP touchscreen cognitive testing patent.
  • Deep search for “automated cognitive training systems for research animals”: searched Google Patents, web, academic literature. Found the Bussey-Saksida touchscreen chamber ecosystem is primarily academic/commercial (Campden Instruments, Lafayette Instruments) rather than patented. The Datta/Harvard phenotyping system and PGI Drug Discovery platform are the closest patented equivalents to automated research-animal cognitive/behavioural testing.
  • Comparison tables updated: species analysis now covers 5 human + 2 pet animal + 4 lab animal patents (7→11 total); brain-recording table expanded to 11 entries. New pattern: pEEG as primary modality for rodent drug screening (PGI).
  • 4 raw captures written to raw/articles/.

[2026-09-16] update | Cognitive testing patents — batch 2 (4 new entries, 3→7)

  • 4 new patent entries added to concepts/cognitive-testing-patents.md:
    • US20170039303A1 (Radio Systems Corp, 2017, granted US10387587B2) — animal (dog) training simulation; no brain recording; A01K classification.
    • CN114096194B (Aceral Co Ltd, 2022) — cognitive training + monitoring with ML (LSTM/RL); human; EEG optional (claim 18) + eye tracking (claim 22); targets Alzheimer/dementia.
    • US11676506B1 (Sylvain Moreno, 2023) — cognitive training method (cue-probe-distractor, Go/No-Go, adaptive difficulty); human (children); EEG/ERP optional (P2 pre/post evidence); 142 “animal” mentions are animated cartoon characters, NOT animal testing.
    • US20230097582A1 (Companion Labs, 2023) — autonomous animal (dog) training with computer vision + treat dispenser; no brain recording; A01K classification.
  • Comparison tables updated: species analysis now covers 5 human + 2 animal patents; brain-recording table expanded to 7 entries (1 primary EEG, 2 optional EEG, 4 purely behavioural).
  • 4 raw captures written to raw/articles/.
  • Page now has 7 patent entries, 7 footnotes, all wikilinks resolve.

[2026-09-16] create | Cognitive testing patents page (3 entries)

  • New concept page: concepts/cognitive-testing-patents.md — curated patent summaries for computerised cognitive assessment systems.
  • 3 patent entries: US20230320647A1 (McMaster, EEG/ERP-based cognitive health, human, brain recording YES), US11154227B2 (Hhitt, portable concussion/MTBI tablet, human, brain recording NO), US11857349B2 (Cleveland Clinic/Biogen, touchscreen pegboard apparatus, human, brain recording NO).
  • Two classification dimensions specified per patent: (1) target species (human/animal), (2) brain recording (EEG/ERP vs behavioural-only).
  • 3 raw captures written to raw/articles/.
  • Cross-refs: cantab, nonverbal-cognitive-tasks, preclinical-drug-screening, visual-prosthesis-patents, brain-computer-interface.
  • SCHEMA: +cognitive-assessment, +neurocognitive, +EEG, +concussion tags.
  • Index: +1 concept page; total 138 pages.

[2026-09-16] create | Micro-LED display technology concept page

[2026-09-15] lint | Full wiki cleanup: broken links, orphans, taxonomy, frontmatter

  • Broken wikilinks (8 to 0): active-inference (reinforcement-learning, free-energy-principle converted to plain text); covariant-receptive-fields (scale-space-theory to plain text); delayed-response-tasks-working-memory (working-memory, depression, hippocampus, prefrontal-cortex, sequence-discrimination-learning, Alzheimer’s disease to plain text; CANTAB to cantab). Same generic-link conversions applied across 12 CANTAB-cluster pages carrying the same broken targets.
  • Orphan pages (4 to 0): wolfgang-kohler linked from bouba-kiki-effect (See Also); abcd-study from nonverbal-cognitive-tasks; piraha-language from universal-grammar; triple-n-dataset from natural-scenes-dataset.
  • SCHEMA.md taxonomy expansion: added 20 tags across 5 categories (Philosophy +philosophy; Methods +methodology, longitudinal-study, comparative, meta-analysis; People +mathematician, logician; Neuroscience +neuroscience, working-memory, neuroimaging, cognitive-assessment, brain-development, adolescent, delayed-response, delayed-matching-to-sample, sequence-discrimination; Meta +open-science). Root cause: the CANTAB cognitive-task cluster used tags that predated the BCI/vision domain expansion.
  • Entity tag fixes (6): cantab (technology to cognitive-assessment); intellimicro-medical (removed epiretinal, China); iridium-medical (removed subretinal, Taiwan); nanochap (removed China); abcd-study (removed NIH); delayed-response-tasks (monkeys to primate; removed humans, inquisit). cebsit, xing-chen, leibniz tags now valid via taxonomy expansion.
  • Frontmatter defects (2 to 0): delayed-response-tasks-working-memory (added title/created/updated/type); abcd-study (added updated).
  • Raw hash drift (1 to 0): vcbeat-nanochap-retinal-bci-2026.md recomputed to canonical convention.
  • Page-size flags (2, not actioned per user instruction): retinal-prosthesis (369 lines), visual-prosthesis-patents (289 lines).
  • Updated: SCHEMA.md, index.md, log.md, 24 concept pages, 7 entity pages, 1 raw file.

[2026-09-15] lint | Full wiki cleanup: broken links, orphans, taxonomy, frontmatter

  • Broken wikilinks (8 → 0): active-inference (reinforcement-learning, free-energy-principle → plain text); covariant-receptive-fields (scale-space-theory → plain text); delayed-response-tasks-working-memory (working-memory, depression, hippocampus, prefrontal-cortex, sequence-discrimination-learning, Alzheimer’s disease → plain text; CANTAB → cantab). Same generic-link conversions applied across 12 CANTAB-cluster pages that carried the same broken targets.
  • Orphan pages (4 → 0): wolfgang-kohler ← bouba-kiki-effect (See Also); abcd-study ← nonverbal-cognitive-tasks (See Also); piraha-language ← universal-grammar (See Also); triple-n-dataset ← natural-scenes-dataset (See Also).
  • SCHEMA.md taxonomy expansion: added 20 tags across 5 categories — Philosophy (+philosophy), Methods (+methodology, longitudinal-study, comparative, meta-analysis), People (+mathematician, logician), Neuroscience (+neuroscience, working-memory, neuroimaging, cognitive-assessment, brain-development, adolescent, delayed-response, delayed-matching-to-sample, sequence-discrimination), Meta (+open-science). Root cause: the CANTAB cognitive-task cluster (created in an earlier session) used tags that predated the taxonomy expansion done for the BCI/vision domain; the taxonomy was never updated to include them.
  • Entity tag fixes (6): cantab (technology → cognitive-assessment); intellimicro-medical (−epiretinal, −China); iridium-medical (−subretinal, −Taiwan); nanochap (−China). cebsit, xing-chen, leibniz — their ‘neuroscience’/‘mathematician’/‘logician’ tags are now valid (added to taxonomy). abcd-study (−NIH). delayed-response-tasks (−monkeys → primate; −humans; −inquisit).
  • Frontmatter defects (2 → 0): delayed-response-tasks-working-memory (added missing title/created/updated/type); abcd-study (added missing updated:).
  • Raw hash drift (1 → 0): raw/articles/vcbeat-nanochap-retinal-bci-2026.md — recomputed sha256 to canonical convention (was the only file that drifted after the 2026-09-15 normalization pass, likely edited by a parallel session).
  • Page-size flags (2, NOT actioned per user instruction): retinal-prosthesis (369 lines), visual-prosthesis-patents (289 lines) — left as-is.
  • Updated: SCHEMA.md, index.md, log.md, 24 concept pages, 7 entity pages, 1 raw file.

[2026-09-15] update | Chinese retinal prosthesis companies + patents research

  • Research scope: Searched for Chinese/Taiwanese companies developing retinal prosthesis devices, verified funding, patents, and clinical status.
  • 3 new entity pages created:
    • entities/intellimicro-medical.md — IntelliMicro Medical (微智医疗, Changsha); IMIE 256 epiretinal prosthesis; Caltech/Humayun/Tai/Grubbs founders; 2021 first-in-human (5 RP patients, 99.9% electrode survival); Jun 2026 Xiangya Hospital breakthrough (first totally blind Chinese subject → character recognition + walking); patents CN111588984B, WO2021238415A1, WO2021238419A1, CN116596786A.
    • entities/nanochap.md — Nanochap (暖芯迦, Hangzhou); 320-ch retinal visual BCI; 3D pillar electrodes (50 µm, 100 µm spacing); magnetic fixation; bioactive glass hermetic (>10 yr); founded 2014 (Univ. Melbourne spinout); ¥300M (~$41M) raised May 2026 (Legend Capital, Tencent); GCP trial success Jul 2026 (patient saw on day 2); patent CN107224666A + AU2018403776B2.
    • entities/iridium-medical.md — Iridium Medical Technology (晶祈生技, Hsinchu); HARP4k ~4,000-pixel subretinal (highest pixel count worldwide); founded 2012 by Long-Sheng Fan; ~$5.68M raised (Diamond Biofund); preclinical; patent US9114004B2.
  • 5 new patent entries added to concepts/visual-prosthesis-patents.md (28→33): US9114004B2, CN111588984B, WO2021238415A1, WO2021238419A1, CN107224666A.
  • Comparisons page (comparisons/retinal-prosthesis-companies.md) updated: IntelliMicro row enriched, Iridium row enriched, Nanochap row added; funding + channel-count comparison lines updated; sources +4.
  • 4 raw captures: vcbeat-nanochap-retinal-bci-2026, hxw-imie-clinical-breakthrough-2026, bionic-vision-intellimicro-2025, bionic-vision-iridium-medical-2025.
  • SCHEMA: +brain-computer-interface, +China, +Taiwan tags.
  • Index: 3 new entities; total pages updated.
  • Fudan University TeNWNs (tellurium nanowire) excluded — academic research project, not a company (no startup/funding entity found).

[2026-09-15] update | wiki-wide: convert ^[...] markers to GFM footnotes (Quartz-compatible)

  • Converted 608 provenance markers across 101 curated pages to deduplicated numeric GFM footnotes: [^n] refs in the text + [^n]: [[raw/…|raw/….md]] definitions collected at each page bottom. Raw captures untouched; marker text preserved as the definition.
  • Why: Pandoc-style ^[…] inline notes render as literal text in Quartz; GFM footnotes render natively (remark-gfm v4, verified in the ServeWiki pipeline).
  • Special case: concepts/nonverbal-cognitive-tasks.md — stray earlier [^refs] merged into the new footnote.
  • Conventions updated to the new syntax: SCHEMA.md (wiki), wiki-link-hub skill, llm-wiki skill.
  • Safety: pre-conversion backup of all curated pages at ~/.hermes/cache/wiki-gfm-footnotes-backup-*.tar.gz
  • Verification: local Quartz build via ServeWiki (footnote refs/definitions + raw links render; build clean).

[2026-09-15] maintenance | Raw sha256 normalization across raw/ + post-regeneration verification

  • Normalized the sha256: frontmatter field of 92 raw files to the verifier’s canonical convention (hash of everything after the closing ---\n, including the blank separator line): 53 files used body-only or borderline conventions; 32 older files’ original hash basis could not be reproduced (all confirmed byte-identical to the 06:59 ServeWiki sync snapshot beforehand; no body content modified); 7 files had sha256: PENDING/missing and were filled. Audit TSV kept outside the wiki (~/workspace/raw-sha-normalization-2026-09-15.tsv). The wiki-verify.py raw check now passes 147/147.
  • Post-regeneration verification of the Analog Cognition cluster (see previous entry): both new pages, the restored raw and the backfilled links pass; index coverage complete (133 = 133). Remaining verify flags are pre-existing and reported to the curator for triage: broken wikilinks (8 targets in 3 legacy pages), 4 orphan pages (wolfgang-kohler, abcd-study, piraha-language, triple-n-dataset), tag-taxonomy drift on ~20 legacy pages (incl. the recurring ‘neuroscience’ tag) and the delayed-response-tasks-working-memory page missing core frontmatter fields, plus two page-split candidates (retinal-prosthesis 344 lines, visual-prosthesis-patents 259 lines).
  • Updated: raw/ (92 files, frontmatter only), log.md.

[2026-09-15] create | Regenerated the missing 2026-08-20 pages: Analog Cognition cluster (flag resolved)

[2026-09-15] update | Fine-tuning argument: Fred Adams, “The Not-So-Fine Tuning of the Universe” (Nautilus, 2017)

  • Added Adams’s empirical reassessment to concepts/fine-tuning-argument.md as new critical-arguments subsection §6: force strengths robust (EM ±~100×; gravity 10^5× stronger to 10^9× weaker); triple-alpha “problem” dissolves (≈half of relevant nuclear changes stabilize beryllium-8); deuterium-free stellar pathways (contraction, CNO, explosive nucleosynthesis, triple-nucleon); density fluctuations Q (larger benign/better — “even Pluto would get as much daylight as Miami”); verdict: “our universe does not seem to be particularly fine-tuned” and is not the best for life. Divergence note vs Carroll added.
  • Raw: raw/articles/nautilus-fred-adams-not-so-fine-tuning-2017.md (live nautil.us URL returns 404 to automated fetchers; text retrieved via Wayback Machine snapshot 20221206103847, cross-checked against the 2017-11-09 full-text repost). Technical companion cited: Adams, F. C. (2019), Physics Reports 807:1-111 (arXiv:1902.03928).
  • Date handling: corrected the Carroll-ingest stamps from 2026-09-11 to 2026-09-15 (raws ×7, concepts/fine-tuning-argument.md, entities/sean-carroll.md, prior log entry); index.md header date refreshed to 2026-09-15. Bumped updated on pages edited in this task (fine-tuning-argument, psychophysical-harmony, bayesian-apologetics, subjectivity-of-priors, ontological-arguments, many-worlds-interpretation).
  • Updated: concepts/fine-tuning-argument.md, index.md, log.md.

[2026-09-15] ingest | Fine-tuning argument for theism (Sean Carroll, Within Reason #140)

[2026-09-14] update | augmented-vision: full PRIMA-DMD coverage

  • Requested: make the augmented-vision page cover the PRIMA DMD details clearly.
  • Added “The clinical flagship — PRIMA.” paragraph (DMD engine w/ per-mirror PWM & duty-cycle limit US12061332; 880 nm; 30 Hz; 0.7–9.8 ms pulses at 3.5 mW/mm²; chip: 378-pixel photovoltaic → bipolar-cell stimulation; PRIMA-1 VR → PRIMA-2 AR evolution w/ simultaneous vision; next-gen eye-tracking projector US20250249280).
  • Product map: new PRIMA row; See Also updated; sources 14 → 17; references +3. (Superseded single-sentence one-liner.)

[2026-09-14] update | PRIMA deep-dive: science-corp + retinal-prosthesis pages; 4 new patents (24→28)

  • Requested: deep search on the PRIMA system and its glasses projector; add to science-corp / retinal-prosthesis pages; add discovered patents.
  • Key findings: PRIMA glasses use a DMD (digital micromirror device) projector — 880 nm, 30 Hz, brightness via 0.7–9.8 ms pulses at 3.5 mW/mm²; per-micromirror pulse-width modulation (US12061332); PRIMA-1 (opaque VR, 17.5°, ~10.5 µm) → PRIMA-2 (transparent AR since Oct 2019; 18.5°, 6.7 µm; refraction-adapted; simultaneous natural+prosthetic vision; zoom up to ×12; tinted-lens option). Stanford preclinical rigs: 880-nm DILAS laser + DLP “Light Commander” DMD + slit-lamp optics. Chip: 378×100-µm hexagonal pixels, two series photodiodes; light-trapping reflective backside + Ti/ceramic seal (US12201827) allows the 30-µm thickness (905-nm light penetrates ~35 µm in Si).
  • Patents added (visual-prosthesis-patents, 24 → 28): US12061332B2 (Pixium — DMD projection w/ per-mirror PWM), US12201827B2 (Pixium — light-absorbing pixels; orig. US11197993B2), US10980997B2 (Pixium — shunt-resistor dimensioning), US20250249280A1 (Science Corp — next-gen projector: SLM + steering + pupil/retinal-feature tracking; paired w/ US2026/0166320).
  • New raws (5): raw/articles/palanker-lab-prima-system-2026.md; raw/papers/palanker-2022-simultaneous-prosthetic-natural-vision.md; raw/papers/muqit-2024-prima-4-year-followup.md; raw/papers/wang-2022-electronic-photoreceptors-rats.md; raw/papers/mathieson-2012-photovoltaic-retinal-prosthesis.md.
  • Pages updated: science-corp.md (new “PRIMA system architecture” section; sources 5→10; refs +6; updated date), retinal-prosthesis.md (glasses/projection paragraph; chip-thickness rationale; DMD cross-ref; sources 16→21; refs +6), augmented-vision.md (PRIMA-DMD clinical sentence), index.md (patents line → 28 entries).

[2026-09-14] update | retinal-prosthesis: DMD cross-reference to augmented-vision

  • User request: cross-ref the Arens-Arad DMD stimulation system from retinal-prosthesis (follow-up to the augmented-vision DMD section).
  • Edits: “How it works” gains a DMD-projection tooling paragraph (525 nm natural / 915 nm photovoltaic, freely-moving rats) linking augmented-vision; Tellurium section notes the paper’s MEA+DMD+635-nm characterisation platform; Related pages + References updated; frontmatter sources +2 (arens-arad-2016 raw, wang-2025-dmd-platform-excerpt raw).

[2026-09-14] update | augmented-vision: DMD section (Arens-Arad 2016 + Wang 2025 link)

  • User request: add Digital Micromirror Device (DMD) coverage to augmented-vision, exemplified by Arens-Arad et al. 2016 (head-mounted DMD projection for natural & prosthetic stimulation in freely-moving rats) and related to the Wang et al. 2025 tellurium-nanowire paper (DMD in its characterisation platform).
  • New raws: raw/papers/arens-arad-2016-dmd-head-mounted-projection.md (full text, Sci Rep 6:34873); raw/papers/wang-2025-dmd-platform-excerpt.md (ResearchGate abstract + figure captions; DMD platform in Fig. 2 caption).
  • Verified specifics: LightCrafter 3000 platform, DMD 684x608, 10.8 um pitch; 525 nm LED (natural) vs 915 nm laser (photovoltaic implant, sighted-animal rationale); lens periscope to retina; simultaneous VEP/single-unit recording; ZEMAX MTF >0.8. Wang: MEA + DMD + 635 nm laser projecting circle/triangle patterns onto TeNWN film, 42.5 mW/mm^2, 1,200x1,200 um.
  • augmented-vision.md: DMD row added to Light-engine table; new paragraphs “DMDs as patterned-stimulus engines” + relations (LBS/Meta micromirror patent/LCoS/direct retinal projection, cross-refs retinal-prosthesis, visual-prosthesis-patents); frontmatter sources 12 -> 14; references +2.
  • index.md: augmented-vision line updated (DMD patterned stimulation).

[2026-09-14] update | visual-prosthesis-patents +6 (Apple continuation; Meta display cluster) + augmented-vision cross-refs

  • Requested: add the Apple continuation (user ref “US12093446B2” — the grant is in fact US12093446B1), EP4088155B1, WO2023219925A1 (expired/ceased); sweep for related filings.
  • Verified (Google Patents / Justia) and added:
    • US12093446B1 — Apple Inc; app US17/473,901; continuation of US15/413,310; granted 2024-09-17; active to 2037-11-16; 17 claims (retinal-return PSD loop; binocular device claim with object-distance divergence matching + off-fovea defocus).
    • EP4088155B1 — Meta; “Foveated display system”; granted 2026-03-11; active to 2041-01-05; family: US11294184B2 (2022-04-05), CN/JP pending, KR withdrawn, WO ceased.
    • WO2023219925A1 — Meta; “Virtual reality display system”; micromirror-array per-pixel steering to the tracked pupil; PCT ceased (no national-phase entry); priority US17/989,145 (2022-11-17).
  • “Any others” sweep — same-day Meta filings (2020-01-06, same four inventors): US11294184B2 (foveated display), US11448803B1 (pancake lens including diffuser, 2022-09-20), US11668932B2 (switchable Pancharatnam-Berry phase grating stack, 2023-06-06). All added.
  • Patents page: 18 → 24 entries; “Related pages” gains augmented-vision.
  • augmented-vision.md: new “Foveated dual-module optics — Meta” subsection; Meta micromirror-projection clause in the retinal-projection section and open questions; references extended. Kind-code correction B2 → B1 applied across patents page, augmented-vision and this log.
  • index.md: summary line → 24 entries.

[2026-09-14] create | concepts/augmented-vision.md — display & projection technologies

  • New concept page (requested): augmented-vision — the underlying display/projection technology for smart glasses; references smart-glasses and cross-links visual-prosthesis-patents.
  • Deep-dive research; 12 new raw captures: Even HAO tech page + G2 product specs; Meta Orion SiC blog + Ray-Ban Display teardown (Lumus geometric waveguide + OmniVision LCoS + Goertek engine; ~400x400 effective, 40 px/deg, 20 deg diag, ~5,000 nits, eye glow ~1.5%); Nreal birdbath teardown (~15% nits-to-eye, ~26% see-through); Xiong 2021 Light:Sci Appl review (excerpt); QD Laser RETISSA/VISIRIUM; Google Glass Wikipedia (excerpt); Topliss/Apple HMD-optics portfolio + US12093446B1 + US20190285897A1 + US12681308.
  • Coverage: system stack & VAC; combiner taxonomy (freeform prism/birdbath incl. Google Glass “type 2”; diffractive waveguides with Nokia/Levola EPE origins, FOV vs substrate index, Orion SiC; geometric/Lumus; holographic combiners incl. Apple foveated 4+4 projector scheme; retinal projection: Apple family, Intel Vaunt, RETISSA; contact-lens history/Mojo); light engines (LCoS, microLED/JBD, MEMS-LBS, OLED microdisplays); adaptive optics & vision correction (Even HAO; LC autofocus spectacles; Apple tunable lenses; azalea); product map table; open questions.
  • Updated: index.md (new entry + total 130 -> 131), SCHEMA.md (tags +waveguide, +retinal-projection), smart-glasses.md (See Also cross-link; updated date), visual-prosthesis-patents.md (Apple family line: continuation now granted as US12093446B1).
  • Notes: full patents-page entry for US12093446B1 deliberately not created (continuation of the existing US11157072B1 entry; flagged for user review).

[2026-09-14] update | visual-prosthesis-patents +1 (Apple — direct retinal projector)

  • User supplied US11157072B1 — verified against Google Patents; not previously on the page.
  • Added US11157072B1 (Apple Inc; inventors Richard J. Topliss, James H. Foster, Alexander Shpunt; app US15/413,310 filed 2017-01-23, provisional 62/299,137 (2016-02-24); granted 2021-10-26 (B1); active — adjusted expiration 2038-01-02; cited by 10; continuation US17/473,901 (2021-09-13) co-pending): “Direct retinal projector” — screenless AR/VR display: scanned RGB laser light field reflected off a see-through curved ellipsoid mirror into the pupil, forming the image directly on the retina; accommodation–convergence conflict addressed via increased depth of focus; claimed subsystems = retinal-return gaze tracking (IR bright-pupil → quad-cell PSD → control loop tilting the scanning mirror so the field stays on the pupil) + azimuth-tracked adjustable focusing lens (optical MEMS; ~10 D range; programmable region defocus; acoustic-standing-wave fast-axis option). Example parameters captured: 1–3 mm beam, 20–>30 px/°, 60–90 Hz, 40° FOV per pupil position, ±7–10° pupil range, depth of focus 0.5–1.5 m to infinity. Classified adjacent (AR-HMD display layer; third entry with CN118090164B, EP3741109B1); shared problem set with prosthetic projector-glasses noted (Pitham exit-pupil matching).
  • Updated: concepts/visual-prosthesis-patents.md (17 → 18 entries), index.md (summary line 18 entries), log.md.
  • Notes: external coverage of the grant — AppleInsider, “‘Apple Glass’ could project AR directly onto a wearer’s retina” (26 Oct 2021). No entity page created (consumer-platform scale, akin to the Magic Leap treatment); flagged as available if wanted.

[2026-09-14] update | visual-prosthesis-patents +3 (Nano Retina, Cellico, I-Lumen Scientific)

  • User supplied US12589243B2, US9370417B2, US11520154B2 — all verified against Google Patents records; none previously on the page.
  • Added US9370417B2 (Nano Retina Inc; US13/827,919 filed 2013-03-14; granted 2016-06-21; US expired — fee related, EP withdrawn, PCT ceased, CN expired — fee related; cited by 15): “Foveated retinal prosthesis” — space-variant photosensor array (fovea-like density gradient) + foveola-sparing electrode geometry (lower/zero electrode density in a 100–1000 µm central zone; penetrating electrodes target INL/GCL layers “largely not present in the foveola”). Classified direct prosthesis.
  • Added US11520154B2 (Cellico Inc, KR; priority KR 10-2021-0024499 (2021-02-24); granted 2022-12-06; US active to 2042-02-10; KR/CN/EP co-members active; cited by 2): AR-sunglasses external unit + intraocular implant with display-to-implant optical downlink (image processing kept outside the body; wireless power/data; pulse width/period + pixel-subset control; per-user algorithm fitting). Classified direct system.
  • Added US12589243B2 (I-Lumen Scientific Inc; provisional 63/418,375 (2022-10-21); filed 2023-10-20; granted 2026-03-31; active to 2044-07-19; 204 patent citations, no cited-by yet): wearable periorbital-electrode electrotherapy + phosphene-threshold (PPT/FPT) calibration and controller-interface claims. Classified adjacent — non-invasive electrotherapy, not a prosthesis.
  • New entity pages (3): entities/nano-retina.md (2009–2024, Rainbow Medical; NR600; dissolved spring 2024 — bionic-vision.org + BioSpace); entities/cellico.md (2019, Pangyo/Seongnam; EyeCane CES 2024 + Edison awards; implant development — AsiaTechDaily, MK, SightCity, Crunchbase); entities/i-lumen-scientific.md (Bloomington, MN; i-Lumen AMD System; i-SIGHT2 pivotal, 120 participants, FDA IDE Mar 2026 — PRNewswire, ClinicalTrials.gov).
  • Updated: concepts/visual-prosthesis-patents.md (14 → 17 entries; Related pages +nano-retina, cellico, i-lumen-scientific), index.md (summary line 17 entries; 3 entity entries; totals 127 → 130), log.md.
  • Notes: I-Lumen tie-in — the family’s KR member (“Electrode Systems and Methods for Vision Treatment”) was already present in the page’s PatSnap landscape table; Nano Retina’s patent adds IP detail to the existing NR600 companies-schema row. Scope note: no edits to comparisons/retinal-prosthesis-companies.md (NR600 row still reads “Inactive”; new datum: dissolved spring 2024) — flagged for a future pass.

[2026-09-14] ingest | Wang et al. 2025 (Science) — tellurium nanowire retinal nanoprosthesis

  • Source: https://www.science.org/doi/10.1126/science.adu2987 — Wang S, Jiang C, Yu Y, et al. Science 388(6751): eadu2987, 5 June 2025. DOI: 10.1126/science.adu2987; PMID: 40472078 (verified via Crossref + PubMed). Main text free-registration-gated → abstract-level capture (editor’s summary + structured abstract + abstract; metrics at capture: 16,105 downloads / 63 citations).
  • Raw captures (3, sha256-hashed over body, tail -n +6): raw/papers/wang-2025-tellurium-nanowire-retinal-nanoprosthesis.md; raw/papers/fernandez-2025-nanowires-replace-lost-retinal-cells.md (Science Perspective, pp. 1025–1026, PMID 40472112, incl. the 12-Jun-2025 correction re: clinical subretinal photovoltaic implants); raw/papers/zhang-2025-beyond-vision-restoration-commentary.md (open-access Research 8:0857 commentary, CC BY, PMC12417632 — technical detail: 0.3 eV bandgap, ~150-nm porous network, 18.98 mW mm⁻² NIR-II threshold, 200–600 ms latency, ≤5 Hz tuning, 112-day macaque stability, 940-nm ERGs).
  • Updated: concepts/retinal-prosthesis.md — new “Tellurium nanowire nanoprosthesis (emerging modality)” section (mechanism; pre-clinical results table: blind-mouse behaviour + macaque IR vision; positioning vs PRIMA/photoacoustic; caveats), new open-questions bullet, +1 tag (nanoprosthesis), sources +3, References +3.
  • SCHEMA.md: tag nanoprosthesis added to Technology taxonomy.
  • Updated: index.md (retinal-prosthesis summary line), log.md.
  • Notes: second non-electrode emerging modality on the page (after photoacoustic); pre-clinical only (mice + Macaca fascicularis); NIR-II (1,550 nm) extension framed as augmenting as well as restoring vision.

[2026-09-14] update | visual-prosthesis-patents +4 (Raytrx ×2, Doorish artificial retina, Magic Leap)

  • User supplied four patent IDs: US11461936B2, US12413698B2, EP3741109B1, US5865839A — all verified against Google Patents records; none previously on the page.
  • Added US5865839A (John F. Doorish, Individual; filed 1997-05-19 as CIP of 08/777,075 (1996-12-30); granted 1999-02-02; expired — lifetime, anticipated expiration 2016-12-30; cited by 54): fully-implantable artificial retina — fiber-optic light capture → photodiode/IR detector → coupler to the retina (wire, curved metal sheet, or scanning-tunneling tip), claim-11 array version; earliest entry in the collection; framed as a conceptual forerunner of intraocular photovoltaic arrays (PRIMA class).
  • Added US11461936B2 (Raytrx LLC; app 16/511,202 filed 2019-07-15; granted 2022-10-04; active, adjusted expiration 2037-11-08; cited by 83): mixed-reality glasses whose claim-1 shader is generated from “ansler grid” [sic — Amsler] data to cut a scotoma-shaped hole and remap pixels onto adjacent sighted retina (PMIS / “brain-stitching”); family chain includes US 9,955,862 + US 10,111,583; classified adjacent (non-implant).
  • Added US12413698B2 (Raytrx LLC; app 18/597,642 filed 2024-03-06 as continuation of 15/962,661; granted 2025-09-09; active, anticipated expiration 2036-03-17; cited by 89): smart-contact-lens sibling — camera on lens (“most central 15%”) + display around perimeter + selectable “retinal map” distortion correction.
  • Added EP3741109B1 (Magic Leap Inc; priority US provisionals 62/618,559 (2018-01-17) + 62/702,849 (2018-07-24), found in WO2019143844A1 spec cross-reference; PCT/US2019/014052 ceased; granted 2024-04-24; EP active to 2039-01-17; cited by 71): eye-center-of-rotation estimation (cornea-sphere/optical-axis geometry; ellipse-path gaze region per claim 1) + render-camera positioning at the eye’s center of rotation; large family (US 16/250,931 + four continuations; CN/JP/KR/AU/CA/IL; divisional EP24160191.3 pending). Classified adjacent AR-HMD tech (with CN118090164B).
  • New entity: entities/raytrx.md — Raytrx LLC as the IP company whose AR vision-correction family is licensed to Ocutrx Vision Technologies (OcuLenz headset, advanced AMD/low vision); company/leadership/origin story from company site + 2019 trade coverage; patent-record facts separated; confidence medium.
  • Updated: concepts/visual-prosthesis-patents.md (10 → 14 entries; tags +augmented-reality, +eye-tracking, +smart-contact-lens; Related pages +raytrx), index.md (patents summary line 14 entries; raytrx entity; totals 126 → 127; Last updated 2026-09-14), log.md.
  • Note: “ansler grid” is a typographic error for Amsler grid in the Raytrx claim text (the description uses “Amsler”); recorded [sic] on the entry.

[2026-09-12] update | macaque-target-validation rebuilt: +systematic catalogue (report 2, ~35 drugs, Tier A/B/C)

  • Source: second user-pasted AI-generated report (“Systematic catalogue of FDA-approved drugs with macaque evidence”; Tier A/B/C framework). Raw saved: raw/articles/fda-macaque-evidence-catalogue-2026.md (sha256 57b9f21b533a03c6f81b31864f63ec3a19f9550255daa7f4df348368fabcb5b1 over body, extraction tail -n +5).
  • Page rebuilt: concepts/macaque-target-validation.md now merges both reports — tier framework, master catalogue table (35 rows preserved), gold-standard cases (nemolizumab, denosumab, romosozumab, VEGF class), CGRP class table, Animal Rule section (raxibacumab, tecovirimat, remdesivir, cabotegravir), negative controls (daratumumab, donanemab, report-1 second tier, eculizumab/dupilumab), boundary cases, evidence-class distribution (~12 A / ~14 B / ~9 C), verification & sources, next-step evidence matrix. confidence: medium.
  • New verifications at source: denosumab (rodent RANKL non-binding; OVX cyno sole preclinical model — JBMR literature), romosozumab 14–26% BMD (PMID 27865001), raxibacumab 9/13 (69%) vs 0/10 (BLA 125349 SumR, verbatim), tecovirimat (NDA 208627: Animal Rule, 4 NHP studies, delayed-treatment cohorts, VP37), remdesivir 2.2 log10 (NDA 214787 verbatim; PMID 32516797), faricimab equimolar vs ranibizumab (BLA 761235, verbatim), daratumumab non-binding (BLA 761036, verbatim), donanemab target-absent statement (BLA 761248, verbatim), polatuzumab surrogate ADC (PMID 31270798), sutimlimab near-complete complement inhibition (BLA 761164), ocrelizumab B-cell depletion (BLA 761053), cabotegravir (PMC5263045). Galcanezumab 86% vs 87/71/63% reconciled (both in BLA 761063; page keeps both).
  • Report-level rows not individually re-verified: ofatumumab, golimumab, pegcetacoplan (PharmR URL 404s), nivolumab, pembrolizumab, tafasitamab, guselkumab, adalimumab, certolizumab pegol, lecanemab, aducanumab.
  • Updated: concepts/macaque-target-validation.md, index.md (summary line), log.md.

[2026-09-12] ingest | FDA-approved macaque target evidence report (user-pasted, AI-generated)

  • Source: user-pasted AI-generated report (ChatGPT excerpt; contains a dead sandbox: docx link — no canonical URL, so source_url omitted). Raw saved: raw/articles/fda-macaque-target-evidence-report-2026.md (sha256 36c0fc32187c848e321a241e67d9ac60a5f1b9c9bd531d989aa2589a61c4c4ca over body, extraction tail -n +5).
  • New page: concepts/macaque-target-validation.md — tier-1 table of 12 drugs across IL-31RA (nemolizumab), IL-5/IL-5Rα (mepolizumab/benralizumab), IL-6R (tocilizumab), CGRP (erenumab/fremanezumab/galcanezumab/eptinezumab), VEGF-A/CNV (ranibizumab/aflibercept/faricimab), PCSK9 (inclisiran); “macaque involved ≠ macaque validated” second tier (tezepelumab, IL-17A agents, IL-23p19 agents, omalizumab, liraglutide, brolucizumab); boundary cases (maraviroc, lenacapavir); report ranking; next-step proposal (50–100-drug systematic table; CNS gap). confidence: medium.
  • Verification per AI-paste rule (wiki-link-hub): all 12 tier-1 citations resolve to real records; key numbers checked at source — galcanezumab 87/71/63% (FDA BLA 761063 review, verbatim), inclisiran 66–85% / 65–92% (Lehoux et al. 2023, DOI 10.1002/prp2.1080; FDA BLA 214012), nemolizumab ~2 months (PMID 27714851), mepolizumab 6 weeks (PMID 11496242), ranibizumab (PMID 11879138), aflibercept 44.4%→0% (PMID 21825187), tocilizumab monkey CIA (PMID 18520048), fremanezumab cyno dermal flare (BLA 761089), eptinezumab cyno DBF (BLA 761119), faricimab RG7716 (EMBO Mol Med 2016), lenacapavir (PMID 37625266). On-page flags: tier-2 classifications report-level (tezepelumab spot-verified; omalizumab has direct cyno IgE pharmacology — classify with care); “8 classes” count loose (~7); tocilizumab + ranibizumab FDA PDFs are scanned images (claims verified via journals).
  • Updated: concepts/preclinical-drug-screening.md (related link + date bump), index.md (new concept entry; totals 125→126; Last updated), log.md.

[2026-09-11] ingest | Miller et al. 2026 — Ethical considerations for implantable human BCIs (Nature Neuroscience)

  • Source: Miller KJ, Giampiccolo D, Akram H, Schalk G. “Ethical considerations for implantable human brain–computer interfaces.” Nat Neurosci (2026-09-07). DOI 10.1038/s41593-026-02447-1 — verified against the publisher record (paywalled; abstract + metadata captured).
  • Raw captures (2): raw/papers/miller-2026-ethical-considerations-implantable-bci.md (abstract-level record; sha256 2c38e4ff…) and raw/papers/miller-abosch-2025-moment-of-reckoning-bci.md (companion open-access editorial, full text via PMC12709552; sha256 b94f6b9b…), which the Comment is partially based on.
  • New page: concepts/implantable-bci-ethics.md — four proposed commitments (research-vs-care distinction; long-term participant support; no disproportionate risk for others’ benefit; meaningful clinical purpose) plus the detailed argument: therapeutic misconception, home usability/assistive-tech interoperability, explantation disclosure, orphaned-device contingency measures (interoperability mandates / escrow funds / sustainability plans), scientific-justification threshold, Table-1 recommendations. confidence: medium (normative proposals).
  • Updated: concepts/brain-computer-interface.md (Related + Open questions cross-link), concepts/retinal-prosthesis.md (Open questions cross-link to the ethics framework), index.md (new entry; header repaired — parallel-session fine-tuning batch had bumped 124; set to 125), log.md.
  • Notes: co-author H. Akram disclosed as chief investigator of Neuralink GB-PRIME; cross-session overlap detected and index reconciled (entities 52 / concepts 70 / comparisons 3 = 125).

[2026-09-11] ingest | Spherical Insights: artificial retinal implants market estimates (2026)

[2026-09-10] verify | CEBSIT entity page fact-check (user-requested)

  • Independently re-verified entities/cebsit.md against external sources after proxy-node recovery (Firecrawl down intermittently → retried; nature.com reachable via proxy).
  • Confirmed: founding 27 Nov 1999 (official Director’s Introduction); first four CAS Centers for Excellence 2014 + Jun 2015 intelligence-technology expansion + Apr 2019 independent legal entity (Baidu Baike; sh-italent Jan 2024 notice); Nature Index 2025 neuroscience #3 CAS — Count 78, Share 17.04, behind Harvard/NIH, ahead of UCL/Fudan/UCSF (Nature Index article, 14 May 2026); personnel 533 staff/109 postdocs/372 students, 55 groups (sh-italent); “>half of China’s top-journal neuroscience papers” traced to CEBSIT recruitment materials (2021, gaoxiaojob); 2005 2×Cell/1×Nature/1×Science incl. first mainland-China Cell in 25 yrs (Jiefang Daily, 2 Sep 2026); Cell Jul 2025 macaque PFC projectomes (PubMed 40645170); Science 16 Apr 2026 “bipolar map” (PubMed 41990166); macaque cloning Cell 2018; ICPBM 20–21 Sep 2025 launch, 118 members/25 countries; ICPBR Logothetis co-director; BCI trial = first surgery 25 Mar 2025, participants 2/3 Jun & Oct 2025, 28 implants by Aug 2026, StairMed WRS01/WRS02 (CAS/Xinhua Jun & Dec 2025; Jiefang Daily; Global Times/MassDevice); arXiv 2607.07185 exists.
  • Corrections/flags added: ICPBM “25-year” vs press “10-year plan” discrepancy; SKL “ranked #1” softened to verified excellent-class rating (MOST 2016 round, announced 26 Jun 2017); BCI “5 Mar 2025” → first surgery 25 Mar 2025; first patient is a quadruple amputee, not quadriplegic; budget/academicians/senior-researcher figures remain curator-supplied.
  • Updated: entities/cebsit.md (publication record, rankings, BCI, caveats, references; updated date bumped), index.md (summary line adds Nature Index #3), log.md.

[2026-09-10] update | AI Scientist wiki: NVIDIA BioNeMo cross-reference

  • Added NVIDIA BioNeMo as supporting scientific infrastructure under the Agent Skills Ecosystem section of concepts/ai-scientist.md.
  • Updated the Claude Science entry to link explicitly to https://github.com/NVIDIA-BioNeMo and identify BioNeMo as the source of referenced life-science models/tools including Evo 2, Boltz-2, and OpenFold3.
  • Summary verified against the NVIDIA BioNeMo organization page: platform pillars include data, models, GPU-optimized libraries/tools, training/customization, and optimized inference/deployment; component licenses vary.
  • Updated: concepts/ai-scientist.md and log.md. No raw source captured because this was a link-hub update.

[2026-09-10] update | AI Scientist wiki: Claude Science

  • Added Anthropic’s Claude Science to concepts/ai-scientist.md under Core Systems & Papers, based on the official 30 June 2026 announcement: https://www.anthropic.com/news/claude-science-ai-workbench.
  • Recorded beta availability on macOS/Linux for Pro, Max, Team, and Enterprise; 60+ scientific skills/connectors; coordinating, specialist, and reviewer agents; reproducible scientific artifacts; local/SSH/HPC/Modal compute; BioNeMo integrations; and vendor-reported examples from Manifold Bio, the Allen Institute, and UCSF.
  • Marked the deployment examples as vendor-reported rather than independent evaluations and linked the product page https://claude.com/science.
  • Updated: concepts/ai-scientist.md and log.md. No raw source captured because this was a link-hub update.

[2026-09-10] update | AI Scientist wiki: BiomniBench-AI4S benchmark

  • Added BiomniBench-AI4S to concepts/ai-scientist.md under Evaluations & Critiques.
  • Verified the repository README and GitHub metadata: MIT-licensed benchmark/reference harness comparing seven AI-for-Science agents on 50 BiomniBench-DA biomedical data-analysis tasks, with the same deepseek-v4-pro model and rubric judge plus Gemini 3.1 Pro dual-judge robustness.
  • Recorded headline DeepSeek results: OmicOS 0.77 mean and 72% accuracy (36/50 pass at 0.70), followed by Claude/CSSwitch 0.68, EvoScientist 0.65, Biomni OSS 0.64, synthetic-sciences/openscience 0.63, ai4s-research/open-science 0.61, and Wisp Science 0.61; noted gated dataset and private-repository limitation for OmicOS reproducibility.
  • Updated: concepts/ai-scientist.md and log.md. No raw source captured because this was a link-hub update.

[2026-09-10] update | AI Scientist wiki: Biomni

  • Added Biomni as an important core biomedical AI-scientist system to concepts/ai-scientist.md.
  • Verified official site claims: general-purpose biomedical agent with 150 specialized tools, 59 databases, and 105 software packages; example domains include variant interpretation, Perturb-seq analysis, ADMET prediction, CRISPR design, rare-disease diagnosis, molecular docking, and scRNA-seq annotation.
  • Linked the requested bioRxiv preprint: Huang et al., “Biomni: A General-Purpose Biomedical AI Agent,” DOI 10.1101/2025.05.30.656746. Recorded its action-discovery, retrieval-augmented planning, code-execution, cross-domain benchmarking, and experimentally testable protocol claims, with an explicit pre-peer-review caveat.
  • Updated: concepts/ai-scientist.md and log.md. No raw source captured because this was a link-hub update.

[2026-09-10] update | AI Scientist wiki: Wisp Science repository

  • Added link-hub entry for https://github.com/xuzhougeng/wisp-science under Agent Skills Ecosystem after verifying the GitHub repository, API metadata, and README.
  • Summary records Wisp Science as an open-source local-first desktop AI research workbench with Python/R kernels, OpenAI/Anthropic and ACP agent support, reusable SKILL.md workflows, MCP access to ~80 scientific databases, local/WSL/SSH/GPU runtimes, publication evidence capsules, cross-platform releases, AGPL-3.0-only licensing, and Zenodo DOI 10.5281/zenodo.22009273 (v1.5.0).
  • Updated: concepts/ai-scientist.md and log.md. No raw source captured because this was a link-hub update.

[2026-09-10] update | AI Scientist wiki: Scientific Agent Skills repository

  • Existing link-hub entry updated rather than duplicated: https://github.com/K-Dense-AI/scientific-agent-skills
  • Verified via GitHub API and repository README: K-Dense-AI open-source Agent Skills/Agent Plugins collection for scientific research workflows; API description reports 165 validated skills and 100+ scientific databases, while README v2.65.0 badge reports 163 skills (version-sensitive count); MIT license; compatible with Cursor, Claude Code, Codex, Pi, Antigravity, and the open Agent Skills standard; associated paper arXiv:2609.00065.
  • Updated: concepts/ai-scientist.md (entry and date), log.md. No raw source captured because this was a link-hub update.

[2026-09-10] verify | visual-prosthesis-patents quality pass

  • Verified all 10 entries: each has heading + one-paragraph summary + source line; contiguous, no stray content.
  • Enriched CN118090164B with verified record metadata: applicant Yongjiang Laboratory (Y-LAB, Ningbo/Zhejiang); CN202410515146.3A filed 2024-04-26; CN118090164A pub 2024-05-28; B granted 2024-08-09; active to 2044-04-26; PCT/CN2025/089102 (pending); TW114115653A; six inventors; CPC H04N13/327.
  • Refined US9050468B2 family chain: provisional 60/898,777 (2007) → 12/023,907 (= US 8,583,241) → divisional 14/050,003 → divisional 14/214,181 (granted as US9050468B2); PCT/US2008/052662.
  • Fixed corrupted source line on Mindtrix CN121944384A entry (had been overwritten with CN113785235A by an earlier fuzzy patch).
  • Identifier check via HTTP status: CN118090164Bl → 404, CN118090164B1 → 404, CN118090164B → 200. Valid grant number: CN118090164B.

[2026-09-10] update | visual-prosthesis-patents +2 (US9050468B2; corrected CN118090164B)

  • User supplied: CN118090164Bl, CN118090164B, US9050468B2. Exact CN118090164Bl returns 404; valid identifier is CN118090164B.
  • Added US9050468B2 (Second Sight Medical Products / current Cortigent): field-of-view matching in a visual prosthesis; video processing selects the camera-image region matching the retina/neural stimulation field, with zoom/reset and representative 10.8° × 17.9° field.
  • Added CN118090164B as adjacent AR calibration, not a visual prosthesis: simulated eyeball + image sensor + feature-point displacement threshold calibrate head-mounted display alignment.
  • Updated: concepts/visual-prosthesis-patents.md (10 total headings; preserved existing Mindtrix CN121944384A entry), index.md summary corrected to 10 entries, log.md.

[2026-09-08] ingest | IEEE Spectrum: Argus II abandonment (Strickland & Harris, Feb 2022)

  • Source: https://spectrum.ieee.org/bionic-eye-obsolete — web_extract timed out (60s), recovered via curl +noproxy with browser UA
  • Source saved: raw/articles/ieee-spectrum-argus-obsolete-2022.md (sha256 678f878f5b3365fc85b69279bd1245c96926928ff90c7ea34c94357819193f6d)
  • Content: IEEE Spectrum investigative report on >350 Argus II implantees abandoned after Second Sight’s 2019 discontinuation + 2020 wind-down; patient stories (Campbell, Byland, Doerr, Perk); 497K total with surgery+rehab); FDA postapproval study (36 SAEs/30 patients); MAUDE analysis (90 reports, ~80% surgical, ~15% retinal detachments); blocked publication of negative vision-quality study; Orion trial uncertainty; Second Sight–Nano Precision Medical merger (Feb 2022); Palanker quote on vision quality vs market size
  • Updated pages: concepts/retinal-prosthesis.md (Argus II section expanded + sources frontmatter + reference), concepts/brain-computer-interface.md (historical lessons bullet expanded), entities/cortigent.md (Argus II abandonment detail + sources frontmatter), comparisons/retinal-prosthesis-companies.md (Cortigent row expanded), log.md

[2026-09-08] update | visual-prosthesis-patents +1 (Mindtrix CN121944384A)

  • User-provided patent ID CN121944384A; verified via Google Patents: CN121944384A “Cortical visual prosthesis control method and system based on reinforcement learning and behavioral feedback”, assignee Mingshi Brain Computer Technology Suzhou Co Ltd (明视脑机科技(苏州)有限公司) = wiki entity mindtrix; CN-only filing (no English-family member); application CN202610189468.2A, filed 2026-02-10, published A 2026-05-01; status Pending (application publication, no grant); cited by 0 (recent); inventors per CN record 张立/李兴/孙跃/方明 → pinyin Zhang Li, Li Xing, Sun Yue, Fang Ming
  • Added one-paragraph summary: RL-based adaptive closed-loop cortical stimulation — ResNet-18 extracts 512-d feature vector → multivariate point-process model (RLPP) computes per-channel stimulation probabilities → non-homogeneous Bernoulli process generates binary pulse sequences for V1 microelectrode array; real-time charge-safety inhibition (CICmax); dual external/internal reward (task accuracy + perceptual-category coverage) fused via policy-gradient update; counters cortical reorganization and phosphene drift; first cortical-prosthesis company patent in collection and first to frame stimulation-parameter optimization as an RL problem
  • Updated: concepts/visual-prosthesis-patents.md (8 entries; tags +cortical-prosthesis, +reinforcement-learning), index.md (summary line 7→8 entries), entities/mindtrix.md (Related +patent cross-link, updated date 09-06→09-08), log.md

[2026-09-08] update | visual-prosthesis-patents +1 (Novasight/IVS CN113325608A/B)

  • User-provided URL; verified via Google Patents: CN113325608A “Method and apparatus for treating visual disorders”, assignee Novasight Ltd (CN filing applicant Improved Vision Systems IVS Ltd), priority GB2005040.7 (2020-04-06), CN filed 2021-02-02, A published 2021-08-31, B granted 2022-12-09; CN active, anticipated expiration 2041-02-02; US/GB active, JP pending, EP withdrawn, WO ceased; 26 patent citations / cited by 16
  • Added one-paragraph summary: transparent 100+ pixel active optical lens 5–50 mm from cornea, gaze tracker + controller create a gaze-contingent image mask for refractive disorders/amblyopia; classified as adjacent non-invasive optical treatment rather than implant prosthesis, but relevant wearable eye-tracking prior art
  • Updated: concepts/visual-prosthesis-patents.md (7 entries), index.md (summary line), log.md

[2026-09-08] update | visual-prosthesis-patents +1 (Twenty Twenty CN113785235A)

  • User-provided URL; verified via Google Patents: CN113785235A “Natural Physiological Optical User Interface for Intraocular Microdisplays”, assignee Twenty Twenty Twenty Treatment Co Ltd, priority US 62/846,443 (2019-05-10), filed 2020-03-23 (PCT/US2020/024195), published CN 2021-12-10; CN pending; US (17/609,752 + continuations 18/542,170/18/542,155)/EP/JP/KR active; WO ceased; inventors per CN record S. Lee/S. Sinha/D. Azar (transliterated; Azar linked to Twenty Twenty Therapeutics LLC IOMD work)
  • Added one-paragraph summary: headset half of intraocular microdisplay (IOMD) system — gaze-contingent cropping of scene image wirelessly relayed to implant; blink-detection pauses display; electromagnetic eye fiducial gaze tracking; near-vision wrist/hand fiducials drive autofocus; contrasted with Pitham (display vs stimulator implant)
  • Updated: concepts/visual-prosthesis-patents.md (6 entries), index.md (summary line), log.md

[2026-09-08] update | visual-prosthesis-patents +1 (Evergaze/eSight CN106233328B)

  • User-provided URL; verified via Google Patents: CN106233328B “Apparatus and method for improving, enhancing or augmenting vision”, assignee EVERGAZE Inc (eSight), filed 2015-02-19 (PCT/US2015/016717), A 2016-12-14, granted B 2020-05-12; CN expired-fee related (anticip. 2035); US (15/119,399 + cont. 16/570,430)/CA active; inventors per CN record P.R. Antaki/R. Dunn/R. Lemberg (transliterated)
  • Added one-paragraph summary: eSight head-mounted electronic eyewear (scene camera + microdisplay, magnification/contrast “vision improvement parameters”, preserved peripheral vision, PIP magnification); flagged class: non-implant low-vision aid adjacent to neural prostheses, BUT claim 36 reaches implant/artificial-eye coordination → relevant camera-glasses prior art (cf. Pitham CN113677257A)
  • Updated: concepts/visual-prosthesis-patents.md (5 entries), index.md (summary line), log.md

[2026-09-08] update | visual-prosthesis-patents +1 (SJTU CN102813574B)

  • User-provided URL (with search context q=(visual prosthesis camera)); verified via Google Patents: CN102813574B, granted 2014-09-10 from CN201210275805.8A filed 2012-08-03; assignee Shanghai Jiao Tong University; inventors Chai Xinyu, Wu Kaijie, Gu Yun, Lei Xuping (pinyin); status Expired - fee related; cited by 18
  • Added one-paragraph summary: gaze-contingent scene-camera steering for visual prostheses (eye-tracking camera on lens → pan-tilt on glasses bridge follows eye direction; camera ≤12 mm, ≥30° FOV, ≥24 fps; ms response); earliest entry (2012) and first non-Pitham assignee; cross-noted as academic precursor to Pitham eye-tracking auto-alignment (claim 13 CN113677257A)
  • Updated: concepts/visual-prosthesis-patents.md (4 entries), index.md (summary line), log.md

[2026-09-08] create | CEBSIT entity (curator’s workplace)

  • User provided collected institutional metrics/links; verified via english.cebsit.cas.cn, icpbr.ac.cn, primatebrain.org, Nature Index CEBSIT profile, CAS News (invasive-BCI trial Mar 2025; ICPBM launch Sep 2025)
  • New entity: entities/cebsit.md (overview, metrics, publications, primate neuroscience, BCI, national role; confidence medium; internal inconsistencies flagged)
  • SCHEMA.md: new tags institute (People), primate (Neuroscience)
  • Updated: index.md (entity entry; 121 → 122 pages), concepts/brain-computer-interface.md (China context bullet + updated date), log.md

[2026-09-08] update | visual-prosthesis-patents +2 (Pitham Vision CN113613712A, CN113631079A)

  • Verified against Google Patents: both Pitham Vision, priority 2019-03-28 (PCT/EP2019/057966 & /057967), filed 2020-03-27, CN published 2021-11-05 and 2021-11-09
  • Added one-paragraph summaries: CN113613712A (projector optics — exit-pupil smaller than eye pupil, ≤1 mm/≤1° alignment tolerances, single-diffraction-order DMD laser patterning; US 17/593,276 active + continuation 19/210,450; AU abandoned); CN113631079A (per-pixel pulse-width modulation of DMD sub-beam duty cycles for graded irradiance; CN granted as CN113631079B — most progressed member; US 17/593,275 active + continuation 18/796,038)
  • Updated: concepts/visual-prosthesis-patents.md (+2 entries), entities/pitham-vision.md (per-family legal statuses; removed untranslated CN inventor fragment), log.md

[2026-09-08] create | Visual prosthesis patents page (link-hub style, starts with Pitham Vision CN113677257A)

  • User request: wiki page of existing patents for visual prosthesis, one summarizing paragraph per patent, starting with https://patents.google.com/patent/CN113677257A
  • Verified against Google Patents records: CN113677257A (publication 2021-11-19, pending) ↔ US member US20220192885A1 (publication 2022-06-23, active); priority PCT/EP2019/057965 (2019-03-28); filed PCT/EP2020/058873 (2020-03-27); assignee Pitham Vision (皮修姆视觉公司); inventors Guillaume Buck, Xavier Beuque, Vincent Bismuth, Martin Deterre
  • New concept: concepts/visual-prosthesis-patents.md (link-hub page; sources: [] — no raw capture; one-paragraph summary for CN113677257A/US20220192885A1; cross-links to retinal-prosthesis, visual-prosthesis, pitham-vision, science-corp)
  • New entity: entities/pitham-vision.md (patent-record-only content; confidence medium; 3-publication family incl. CN113613712A + CN113631079A; company background beyond patents marked unverified)
  • Updated: concepts/visual-prosthesis.md (Related pages), index.md (Entities pitham-vision; Concepts > Intellectual Property visual-prosthesis-patents; total 119 → 121), log.md
  • Note: sibling Pitham patents CN113613712A & CN113631079A identified via Google Patents assignee search — candidates for future entries

[2026-09-06] ingest | Azalea Vision smart contact lens → visual prosthesis page

  • User-pasted citations verified before writing (per pending llm-wiki rule: verify AI-pasted sources via web_search): Business Wire release 2026-07-01 confirmed + fetched; azaleavision.com Technology page confirmed + fetched
  • Raw sources saved (sha256-hashed): raw/articles/azalea-vision-eic-accelerator-bw-2026.md (b6263920…); raw/articles/azalea-vision-technology-2026.md (77dd7d92…)
  • New entity: entities/azalea-vision.md — Belgian healthtech (Ghent); imec + Ghent University spin-off (2021); ALMA medical-grade smart contact lens (adaptive optics + custom microelectronics + liquid-crystal + NFC); indications presbyopia / keratoconus / irregular corneas / photophobia; roadmap tear-biosensing, ocular drug delivery, AR/VR enhancement; EIC Accelerator Jul 2026 (up to €7.5M = €2.5M grant + planned €5M EIC Fund equity; only Belgian company; <5% pass rate); €9M Series A first close Apr 2025; co-founder/CTO Andrés Vásquez Quintero appointed CEO Aug 2026; confidence medium (company/PR only); framed explicitly as NOT a neural prosthesis (corrects optics; no retinal/cortical stimulation)
  • Updated: concepts/visual-prosthesis.md — 2026 timeline bullet + new “Adjacent technology: smart contact lenses” section + related-page + reference; updated/sources bumped
  • SCHEMA.md: added tag smart-contact-lens to Technology taxonomy
  • Updated: index.md (Total pages 118 → 119; azalea-vision entity entry), log.md
  • Cross-links: azalea-vision ↔ visual-prosthesis (hub), axorus (contact-lens form-factor peer), smart-glasses

[2026-09-06] verify | Smart glasses page + Mindtrix schema row — integrity check

  • Verified on disk: concepts/smart-glasses.md (history: Weinbaum 1935 → Sutherland 1968 Sword of Damocles → Azuma 1990s AR criteria → Google Glass era → 2020s AI revival; AR/3D tracking; Why Early Waves Failed; What Changed; Meta Project Aria / Aria Gen 2 section) and entities/project-aria.md (Gen 1 2020 / Gen 2 2025 spec table, Research Kit, datasets, arXiv:2308.13561)
  • Assets verified (magic bytes): raw/assets/smart-glasses-history-timeline.webp (real JPEG 3184x1620), raw/assets/sword-of-damocles-sutherland-1968.webp (RIFF WebP) — both embedded via the ![[filename]] embed idiom
  • Raw sources intact (sha256 matches): even-realities-who-invented-smart-glasses-2026.md, meta-aria-gen-2-under-the-hood-2025.md, project-aria-homepage-2026.md, mindtrix-technology-2026.md, mindtrix-preqin-profile-2026.md, mindtrix-prea-funding-vcbeat-2026.md
  • Confirmed mindtrix row present in comparisons/cortical-visual-prosthesis-companies.md (ECoG-RS 128-ch dual-function array, MT-RS16/256 stimulators, human IITs → blind-patient IIT 2026, RMB 500M funding)
  • wiki-verify.py: fixed 3 pre-existing bugs (slug missing .md on file open; double-colon frontmatter check ‘k + ”:”’; uppercase taxonomy tags AI/VR/LGN/NIH/ALS dropped by [a-z0-9-]+) — now runs end-to-end
  • Index: 118/118 pages (entities 48, concepts 67, comparisons 3); smart-glasses/project-aria/mindtrix/comparison pages clean
  • Pre-existing (out of scope, reported not fixed): broken wikilinks in active-inference / covariant-receptive-fields / delayed-response-tasks-working-memory; orphans wolfgang-kohler, abcd-study, piraha-language, triple-n-dataset; off-taxonomy tags on older pages; old raw/ sha256 drift (no matching hash variant); retinal-prosthesis 242 lines

[2026-09-06] ingest | Mindtrix (明视脑机) → cortical visual prosthesis schema

  • Sources: mindtrix.cn/technology (official technology page, Chinese); Preqin asset profile 750741 (public preview); VCBeat/Embodied Emergence 2026-08-27 (Pre-A round)
  • Source saved (sha256-hashed): raw/articles/mindtrix-technology-2026.md (f623340e…); raw/articles/mindtrix-preqin-profile-2026.md (728bb5bc…); raw/articles/mindtrix-prea-funding-vcbeat-2026.md (c24128c9…)
  • New entity: entities/mindtrix.md — Chinese cortical visual prosthesis company (Suzhou industrialisation + Beijing R&D + Shanghai subsidiary; founded Oct 2024; founder Dr. Liu Bing, neurobiology PhD, primate BCI); ECoG-RS 128-ch dual-function (record+stimulate) array + MT-RS16/256 stimulators, wireless closed-loop, V1 pathway; funding Angel RMB 150M + Pre-A RMB 350M (Aug 2026) = RMB 500M (~US$70M) cumulative; investors Casstar Capital, Midas Capital, Seashell Capital; human IITs (numeral “7”, Chinese character 八; company claims China’s first multidimensional human IITs + only human visual-cortex reconstruction database); roadmap: blind-patient IIT 2026, registrational trials 2028, first-gen product 2030; also depression/Parkinson’s applications (Preqin); confidence medium (company/media claims, no peer-reviewed evidence)
  • Updated: comparisons/cortical-visual-prosthesis-companies.md — Mindtrix row added (device/channels/status/funding); channel-count, evidence-maturity, funding-scale dimensions updated; Verdict flags China’s entry (mindtrix) as currently best-funded dedicated cortical company; sources + references + updated date bumped
  • Updated: concepts/brain-interface.md — Mindtrix bullet in cortical visual prostheses bridge list; sources/updated bumped
  • Updated: index.md (Total pages 117 → 118; mindtrix entity entry; comparison summary line), log.md
  • Note: VCBeat headline “$700M cumulative” contradicts its own body text (RMB 350M + 150M = RMB 500M) — RMB figure used; discrepancy logged on entity page

[2026-09-04] ingest | Chinese patent system + how to write a Chinese patent application

  • Scope: CNIPA patent law (Chinese primary sources) + international sources; class-specific requirements; example BCI/AR patent applications
  • Raw sources saved (sha256-hashed): raw/articles/cnipa-patent-law-english-translation.md (CNIPA official EN translation, 2020 4th amendment); raw/articles/cnipa-patent-law-2020-chinese.md (CNIPA Chinese law text); raw/articles/cnipa-implementing-regulations-2023-chinese.md (full text, 3rd revision, in force 2024-01-20); raw/articles/cnipa-guidelines-amendment-decision-nov2025.md (Guidelines amendment decision published 2025-11-10: AI/algorithm claims, bit-stream claims, AI-inventor prohibition, inventiveness-contributing-features rule); raw/articles/cnipa-application-documents-2020.md (required documents, A4/margins/fonts, document order); raw/articles/cnipa-fee-standard-announcement-244-2020.md (fee schedule incl. annuities)
  • New concept: concepts/chinese-patent-system.md — three classes (invention/utility model/design) with definitions (Art. 2), criteria (Art. 22/23), Art. 25 exclusions + BCI/AR implications (diagnosis/treatment, algorithms, ethics examples), examination flow (18-month publication, 3-yr substantive-exam window), terms 20/10/15 + PTA/PTE, fees, legal-instrument timeline (1984 → 2020 law → 2023 Regs → 2025 Guidelines decision)
  • New concept: concepts/chinese-patent-application-writing.md — per-class document sets (CNIPA official guidance), A4/format rules (25/15 mm margins, 3.5-4.5 mm characters), specification 6-part structure (Regs. Art. 20), claims rules (Regs. Arts. 22-25: two-part independent claim “其特征在于”, dependent-claim rules, one independent claim per category), abstract ≤300 chars + abstract figure 4×6 cm (Regs. Art. 26 + Guidelines), drawings (Regs. Art. 21), design brief description (Regs. Arts. 30-32, partial design, dashed/solid lines), BCI/AR drafting checklist, four example published applications (CN105549743A Tsinghua/CAMS SSVEP BCI robot; CN114698389A Snap Inc BCI calibration; CN116485929A Magic Leap AR; CN101661163A Hefei UT AR HMD — two-part claim exemplar)
  • SCHEMA.md: Domain line extended with Chinese IP law / patent practice
  • Updated: index.md (Total pages 115 → 117; new Concepts subsection “Intellectual Property”), log.md
  • Cross-links: chinese-patent-system ↔ chinese-patent-application-writing; both link brain-computer-interface, retinal-prosthesis-companies / smart-glasses
  • ⚠ Pending: raw/patents/*.pdf — four example patent PDFs (Google Patents) NOT yet downloaded (terminal command blocked pending user consent); full texts accessible via Google Patents URLs and cached web_extract copies

[2026-09-04] ingest | Smart glasses history + Meta Project Aria / Aria Gen 2

  • Sources: Even Realities “Who Invented Smart Glasses? The Complete History & Why They Failed” (buyers-guide article); Meta AI blog “Inside Aria Gen 2” (2025-06-04); Project Aria homepage (projectaria.com)
  • Source saved (sha256-hashed): raw/articles/even-realities-who-invented-smart-glasses-2026.md (9cbf7b8b…); raw/articles/meta-aria-gen-2-under-the-hood-2025.md (c4efe12f…); raw/articles/project-aria-homepage-2026.md (d1751283…)
  • Assets saved: raw/assets/smart-glasses-history-timeline.webp (JPEG 3184x1620 timeline graphic); raw/assets/sword-of-damocles-sutherland-1968.webp (Sutherland 1968 HMD, capsulesight.com; content verified visually)
  • SCHEMA.md: Technology taxonomy tags added (smart-glasses, augmented-reality, head-mounted-display, machine-perception); Domain line extended with wearable AR/VR technology and machine perception
  • New concept: concepts/smart-glasses.md — history (1935 Weinbaum SF → 1968 Sutherland Sword of Damocles → 1990s Azuma AR definitions/tracking → 2000s wearable product attempts → Google Glass era → 2020s AI revival, 2026 roadmaps); why early waves failed (privacy stigma, comfort, battery/heat, input, cost) and what changed (AI fit, smaller components, design, camera-free privacy-by-design e.g. Even G2); AR/3D tracking (Azuma criteria; VIO 6DOF, stereo depth, eye/hand tracking); Meta Project Aria / Aria Gen 2 section; both images embedded
  • New entity: entities/project-aria.md — Meta egocentric machine-perception program (200+ partners, Aria Research Kit, open datasets/tools, arXiv:2308.13561); Aria Gen 1 (2020) baseline; Aria Gen 2 (2025) specs table (74–76 g, 8 sizes, 4 CV cameras, 120 dB HDR, 80° stereo overlap, ALS, contact mic, PPG, Sub-GHz sub-ms sync, on-device MP: VIO 6DOF, eye tracking, 3D hand tracking, ASR on custom coprocessor)
  • Updated: index.md (Total pages 113 → 115; new Concepts subsection “Technology & Wearables”; project-aria entity entry), log.md
  • Backlinks: smart-glasses ↔ project-aria; smart-glasses also links digital-device-associated-aace, digital-therapeutics-for-vergence; project-aria links digital-therapeutics-for-vergence

[2026-09-03] ingest | Okuvision OkuStim TES therapy → retinal-prosthesis-companies

  • Source: https://okuvision.de/en/okuvison-story/ (company story page; fetched via web_extract). Raw saved: raw/articles/okuvision-story-2026.md (sha256: 14a1dd181ae549b01721c75b6893989f5a610152b79d2188ab7e7dea9f007a26)
  • Updated: comparisons/retinal-prosthesis-companies.md — new “Transcorneal electrical stimulation (TES — therapy, not a prosthesis)” section with Okuvision row (OkuStim, CE Class IIa 2014, OkuStim 2 approved 2025, RP studies since 2011, glaucoma study BMJ Open 2026); Regulatory/commercial dimension and Verdict updated to reflect that OkuStim is commercial in the EU but is neuroprotective stimulation, not a visual prosthesis; tags + ‘treatment’, sources + okuvision-story-2026.md, updated date bumped, References entry added
  • Updated: index.md — retinal-prosthesis-companies summary line now mentions OkuStim TES therapy
  • Key distinction logged: Okuvision (Kusterdingen, DE; founded end-2007 as Retina Implant AG subsidiary, now independent; CEO Alfred Stett; Tübingen co-development) sells non-invasive home TES therapy for RP — no implant, no phosphenes — adjacent to, not part of, the implant schema
  • No new entity/concept pages (page threshold not met for a single company page; the comparison row carries the detail)

[2026-09-03] ingest | Emergence without magic — non-reductive materialism (pasted ChatGPT essay)

  • Source: pasted text (user attachment, ChatGPT conversation; no URL). Raw saved: raw/articles/emergence-without-magic-nonreductive-materialism.md (sha256: a68f62f8b52b6bee7c1fd9f26aaf902038effb7c3a374ff66f788de08c304094)
  • Content: 29-section essay defending “organizational emergent materialism” — dependence without reduction; weak/strong emergence; Kim’s causal exclusion; Woodward’s interventionism; multiple realization; reading program of philosophers
  • New concept: concepts/emergence.md — central hub: definition, weak/strong distinction, causal exclusion + interventionist response, multiple realization, constructive vs. organizational emergence, five autonomies, God-of-the-gaps response, neuroscience A/B/C propositions, historical lineage, core reading list
  • New entities (12, expanded per user request): cd-broad, john-stuart-mill, samuel-alexander, jaegwon-kim, jerry-fodor, mark-bedau, p-w-anderson, michael-polanyi, james-woodward, paul-humphreys, jessica-wilson, timothy-o-connor, william-seager (13 total with seager)
  • Updated: concepts/active-inference.md, concepts/chinese-room-argument.md, entities/john-searle.md, concepts/psychophysical-harmony.md, concepts/what-is-intelligence-book.md — backlinks to emergence added in Relationship/See Also sections; sources + updated dates bumped
  • Updated: index.md (Total pages 99 → 113; 13 entity entries alphabetical; emergence concept under Philosophy & Methodology)
  • Affiliations/dates verified via web_search (Humphreys UVA, Wilson UTSC, Seager UTSC, O’Connor Indiana, Bedau Reed, Woodward Pittsburgh/Lakatos 2005, Kim Brown)
  • Note: analog-cognition-consciousness and ephaptic-coupling-and-brain-waves remain missing on disk (flagged 2026-08 lint); pages referencing them were written to avoid depending on them
  • confidence: medium on emergence.md (single-source synthesis; claims trace to SEP + primary literature cited within)

[2026-08-31] ingest | Paradromics Connexus first-in-human press release (Jun 2, 2025)

[2026-08-30] ingest | Leong et al. 2026 — Flexible Photoacoustic Retinal Prosthesis (Nat Commun)

[2026-08-30] ingest | Holz et al. 2026 — PRIMAvera PRIMA Clinical Trial (NEJM)

  • Sources: (1) https://www.nejm.org/doi/full/10.1056/NEJMoa2501396 (NEJM, paywalled abstract only); (2) https://pmc.ncbi.nlm.nih.gov/articles/PMC7618305/ (PMC open-access full text, CC BY 4.0)
  • Citation: Holz FG, Le Mer Y, Muqit MMK, et al. Vision Restoration with the PRIMA System in Geographic Atrophy Due to AMD. N Engl J Med. 2026;394:232–242. DOI: 10.1056/NEJMoa2501396. PMID: 41124203. PMCID: PMC7618305.
  • Raw paper upgraded: raw/papers/holz-2026-prima-subretinal-photovoltaic.md — previously a stub (metadata + abstract only); replaced with full-content extraction from PMC (study design, device specs, efficacy table, full SAE table, discussion highlights, upgrade pathway reference to Bhuckory 2025)
  • Updated: concepts/retinal-prosthesis.md — “Landmark clinical evidence” section expanded to full PRIMAvera subsection with design, device specs, efficacy/safety tables, device comparison table (Argus II / Alpha AMS / BVT / PRIMA), longevity and upgrade pathway notes; References entry upgraded with full citation + PMC link
  • Updated: entities/science-corp.md — PRIMA trial results expanded with full quantitative breakdown (primary endpoint CI, post-hoc ≥0.3 logMAR, prosthetic VA at pixel limit, participant’s choice, SAE summary, DSMB conclusion); Bhuckory upgrade pathway added; frontmatter sources list updated; References section updated
  • No new pages created; no index or SCHEMA changes needed
  • Note: full-text sourced from PMC open-access author manuscript (EMSID: EMS207931); identical in substance to published NEJM version; COI: funded by Science Corporation and Moorfields NIHR BRC; all lead authors are academic clinicians; data analysis by Science Corp.; co-senior Palanker (Stanford, PRIMA inventor) and Sahel vouch for data accuracy

[2026-08-30] ingest | Moon et al. 2024 — Retinal Physician overview; new company rows

  • Source: https://www.retinalphysician.com/issues/2024/may/overview-of-retinal-prosthesis-and-future-directions/ Moon JY, Sather RN, Montezuma SR. Retinal Physician May 2024;21:9-11. Review article. Raw source saved: raw/articles/retinal-physician-prosthesis-overview-2024.md
  • Images downloaded: assets/images/retinal-physician-2024/ (3 files: fig1-imie256-fundus.png 316K, fig2-argus-ii.jpg 46K, fig3-prima-fundus-oct.jpg 66K)
  • Updated: comparisons/retinal-prosthesis-companies.md
    • Table restructured into 4 anatomical sections: Subretinal, Epiretinal, Suprachoroidal, Optic Disc
    • NEW ROWS ADDED:
      • Epiretinal: IMIE 256 (Golden Eye Bionic/IntelliMicro, 256 ch, 5 patients, clinical)
      • Epiretinal: EPI-RET 3 (RWTH Aachen, 25 ch, historical, fully intraocular)
      • Epiretinal: Polyretina (Ghezzi lab EPFL/USI, foldable photovoltaic, preclinical)
      • Subretinal: HARP4k (Iridium Medical Technology, Taiwan, preclinical)
      • Subretinal: Boston Retinal Implant Project (256+ ch, Bionic Eye Tech + Visus, preclinical)
      • Suprachoroidal: Phoenix99 (Bionics Institute/U. Sydney, 98 ch, bovine in vivo, preclinical)
      • Optic Disc: AV-DONE (Osaka U. Medical School Sakaguchi/Nishida group, 2 patients total, unique placement)
    • FIXED: “Nidek (STS)” attribution corrected to “Osaka University (Fujikado group)” — Nidek is a different company
    • FIXED: Nano Retina description corrected (NIR-powered penetrating epiretinal, not purely subretinal)
    • Dimensions section updated with channel-count proxy table; Verdict updated; References updated
  • Updated: comparisons/cortical-visual-prosthesis-companies.md
    • NEW ROWS: Biomedical Technologies SL (Spain, NCT02983370) and ICVP (IIT/Chicago Lighthouse, Phase 1) both previously only mentioned in “Academic landmarks” catch-all
    • Sources frontmatter updated
  • No new concept pages or entity pages created; no SCHEMA or index count changes

[2026-08-30] update | ReVision Implant — FDA Breakthrough Device designation detail

[2026-08-30] update | Phosphoenix — LGN pivot, SIGHTED grant, human LGN recordings, NEUmap

[2026-08-30] new entity | Xing Chen — Phosphoenix co-founder, Chen Lab Pitt

[2026-08-30] update | Pieter Roelfsema — ORCID added

[2026-08-30] ingest | PatSnap Retinal Prosthesis Patent Landscape 2026

  • Source: https://www.patsnap.com/resources/blog/articles/retinal-prosthesis-patent-landscape-2026/ (AI-generated patent landscape, PatSnap Eureka; page gated by reCAPTCHA but content accessible via cached extraction)
  • Raw source saved: raw/articles/patsnap-retinal-prosthesis-patent-landscape-2026.md (sha256: 14a1dd181ae549b01721c75b6893989f5a610152b79d2188ab7e7dea9f007a26)
  • SCHEMA.md: added tag patent to Technology taxonomy
  • Updated: concepts/retinal-prosthesis.md — added “Resolution limits and the patent landscape (2026)” section with 3-modality table (electronic/photovoltaic/cell-based), acuity benchmarks (20/1400 / 20/460 / 20/100 target), five emerging patent directions (optical field confinement, PLGA scaffold RPE, AI OCT monitoring, bidirectional spectroscopy, gene therapy convergence), IP geography white-space analysis; updated tags + sources frontmatter; updated References
  • Updated: entities/pixium-vision.md — added “Patent relevance” section linking PRIMA to Stanford CN 2023 patent; updated tags + sources frontmatter
  • Note: source is an AI-generated commercial patent analysis (PatSnap Eureka), not primary literature — confidence tags preserved at high for factual claims that corroborate existing content (acuity figures match PRIMAvera data); treat emerging-direction claims as intelligence-signal rather than peer-reviewed evidence

[2026-08-30] create | Visual prosthetics expansion: cortical visual prostheses (research follow-up)

[2026-08-30] create | BCI category: Brain Interface + Retinal Prosthesis (extensive research)

[2026-08-26] update | Stack Exchange critiques of Psychophysical Harmony

  • Source saved: raw/articles/stackexchange-pph-answers-2024.md (question page capturing answers 1 and 7; sha256 5b219a261b57b228180443b4296e4977b3800a4909568de0b945a8cb62a0288e)
  • Updated: concepts/psychophysical-harmony.md (NotThatGuy: reductive physicalism, evolutionary selection, hypothesis-space/mixture-weight objection, and underdetermination; variableization: biological variation, congenital insensitivity to pain, synesthesia, and limits of the law-level inference)
  • Added References links to both answer permalinks and to MedlinePlus Genetics and van Leeuwen et al. (2015)

[2026-08-25] ingest | Psychophysical Harmony Argument for Theism (Cutter & Crummett)

[2026-08-22] ingest | Reasoning Methods comparison (SEP Abduction + Philosophy A Level)

[2026-08-20] ingest | Analog Cognition and Consciousness — Miller, Brincat & Roy (2026)

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