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llm-wiki

A personal LLM-maintained wiki of paradigm-shifting scientific papers — the ones that founded a field, caused a paradigm shift, or enabled subsequent breakthroughs. Karpathy LLM Wiki pattern, Codex-driven "why this mattered" prose, OpenAlex / MeSH concepts, deployed via MkDocs.

v1.3 status

The wiki indexes 848 papers confirmed Fleming-tier by an LLM filter (Codex / GPT-5) over 2,248 candidates from OpenAlex's high-citation slice (cited_by_count > 10000 && year < 2010 ∪ cited_by_count > 5000 && year ≥ 2010). 581 papers have full LLM-written Why this mattered prose; the remaining 268 ship with abstract only — the Codex backfill will finish them in a follow-up pass once the upstream transient errors clear.

Paper-level graph: 1,438 edges (929 cite + 509 enables), every edge carries a one-sentence LLM "why related" label.

Examples in the corpus:

  • Shannon — A Mathematical Theory of Communication (1948)
  • Watson–Crick → PCR → Human Genome → AlphaFold lineage
  • Lowry / Bradford / Laemmli foundational biochem assays
  • Metropolis MCMC (1953), Random Forests (2001), ResNet (2016)
  • Benjamini–Hochberg FDR (1995), Kaplan–Meier (1958)

Visualisations

  • UMAP map — every paper as a point, coloured by year, TF-IDF over title + abstract. Hover for the title.
  • Chunk graph — paper-level citation + enables edges with LLM-written "why related" labels (hover an edge to see).

Browse

  • Spec — full design
  • Papers — every Fleming-tier paper page

How papers are picked

Three-stage funnel:

  1. Authoritative seed — OpenAlex (cited_by_count > 5,000) + Karpathy reading list / Awesome ML Papers. ~3,155 candidates from 4 sources.
  2. Heuristic shortlist — top by citation; trimmed to 200 for v1.
  3. LLM tier filter — Codex judges each on Fleming criteria (founded a field / caused paradigm shift / enabled breakthroughs / universally taught). 96 of 200 confirmed.

The same pipeline scales to all 3,155 candidates and to ~600 core papers as more sources (Nobel references, NIH Landmarks, APS Centennial, Wikipedia "Year in science") are wired in. See the spec for details.

Standards (interop)

DOI · OpenAlex Concepts · MeSH · CSL-JSON · JSON-LD + schema.org · Markdown + YAML · Parquet · DuckDB · ChromaDB · GraphML / GEXF. Every artefact is one conversion away from any other system.

Repo

github.com/xodn348/llm-wiki · MIT