Pith Number

pith:3Q4F7NJB

pith:2026:3Q4F7NJBFDPXY6GCIM4B4UVVO4

not attested not anchored not stored refs pending

Towards Autonomous Mechanistic Reasoning in Virtual Cells

Alisandra Kaye Denton, Dominique Beaini, Emmanuel Noutahi, Jake Fawkes, Lu Zhu, Yunhui Jang

Mechanistic action graphs verified by a multi-agent system produce explanations that improve factual accuracy and gene expression prediction in virtual cell models.

arxiv:2604.11661 v3 · 2026-04-13 · cs.LG · cs.AI

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\usepackage{pith}
\pithnumber{3Q4F7NJBFDPXY6GCIM4B4UVVO4}

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Record completeness

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2 Internet Archive

3 Author claim open · sign in to claim

4 Citations open

5 Replications open

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The bundle contains the canonical record plus signed events. A mirror can host it anywhere and recompute the same current state with the deterministic merge algorithm.

Claims

C1strongest claim

training with these explanations improves factual precision and provides a more effective supervision signal for downstream gene expression prediction

C2weakest assumption

The verifier-based filtering approach produces factually grounded and actionable mechanistic reasoning that is independent of the generation process and generalizes beyond the Tahoe-100M atlas.

C3one line summary

VCR-Agent uses mechanistic action graphs and verifier-based filtering to autonomously produce verified biological explanations, and training on the resulting VC-TRACES dataset improves factual precision and gene expression prediction.

Receipt and verification

First computed	2026-05-21T01:05:19.017546Z
Builder	pith-number-builder-2026-05-17-v1
Signature	Pith Ed25519 (`pith-v1-2026-05`) · public key
Schema	pith-number/v1.0

Canonical hash

dc385fb52128df7c78c243381e52b5773a1b78a53ac914fe36f34e5b6849543a

Aliases

arxiv: 2604.11661 · arxiv_version: 2604.11661v3 · doi: 10.48550/arxiv.2604.11661 · pith_short_12: 3Q4F7NJBFDPX · pith_short_16: 3Q4F7NJBFDPXY6GC · pith_short_8: 3Q4F7NJB

Agent API

Resolver JSON Graph JSON Events JSON Schema Signing key

Verify this Pith Number yourself

curl -sH 'Accept: application/ld+json' https://pith.science/pith/3Q4F7NJBFDPXY6GCIM4B4UVVO4 \
  | jq -c '.canonical_record' \
  | python3 -c "import sys,json,hashlib; b=json.dumps(json.loads(sys.stdin.read()), sort_keys=True, separators=(',',':'), ensure_ascii=False).encode(); print(hashlib.sha256(b).hexdigest())"
# expect: dc385fb52128df7c78c243381e52b5773a1b78a53ac914fe36f34e5b6849543a

Canonical record JSON

{
  "metadata": {
    "abstract_canon_sha256": "7c30bdecd5e7233efc149edf3f9b6ef5cd220819eccad51513448d7923768979",
    "cross_cats_sorted": [
      "cs.AI"
    ],
    "license": "http://creativecommons.org/licenses/by-nc-sa/4.0/",
    "primary_cat": "cs.LG",
    "submitted_at": "2026-04-13T16:10:44Z",
    "title_canon_sha256": "5c1a0c1236186beafc9239251a4ce6ee0545eec4b92d50194b8326f968f75f83"
  },
  "schema_version": "1.0",
  "source": {
    "id": "2604.11661",
    "kind": "arxiv",
    "version": 3
  }
}