From a6164e58c4d302247672cd6119b1c805a3405a60 Mon Sep 17 00:00:00 2001 From: "marcin p. joachimiak" <4625870+realmarcin@users.noreply.github.com> Date: Wed, 22 Jul 2026 13:17:15 -0700 Subject: [PATCH] NEXT_TASKS: record syntrophy/DIET causal batch (#251, ~65/304) Add the 4-record batch (000183/188/189/297) to the causal "done so far" list and note that 000297 yielded no justifiable edge (parallel proposed DIET pathways) and that the 6 already-wired matches were left as-is. Co-Authored-By: Claude Opus 4.8 (1M context) --- NEXT_TASKS.md | 10 ++++++++-- 1 file changed, 8 insertions(+), 2 deletions(-) diff --git a/NEXT_TASKS.md b/NEXT_TASKS.md index f45d5419..b5d665c6 100644 --- a/NEXT_TASKS.md +++ b/NEXT_TASKS.md @@ -348,8 +348,14 @@ CommunityMech:000268, reversible magnetite-"battery" loop 2⇄3 + both half-reac battery, PMID:25814583), `ORNL_Clostridium_Desulfovibrio_Geobacter_Trophic_Model` (#249; CommunityMech:000176 — conservative: full text unretrievable, so 2 directly-implied donor→partner edges + a KNOWLEDGE_GAP discussion, modeled-limitation node left isolated). -~61/304 records now carry `downstream` causal edges. **Next:** continue on high-value -syntrophies; always use the RECORD's canonical taxon ids (Edison groundings have had +**Syntrophy/DIET batch (#251):** `Dehalococcoides_Syntrophomonas_TCE_Dechlorination_Coculture` +(000183, 2 edges), `Trichococcus_Syntrophomonas_Methanospirillum_Butyrate_Coculture` +(000188, 2 HYPOTHESIZED mediator edges + KG), `Syntrophomonas_Methanococcus_Butyrate_Growth_Coordination_Coculture` +(000189, 1 edge + KG), `DIETsimp_Lignocellulose_to_Methane_DIET_Consortia` (000297, NO edge +justified — parallel proposed DIET pathways — KG only). The 6 already-wired matches +(000031–033 DIET, 000068–070 syntrophies) were left as-is. ~65/304 records now carry +`downstream` causal edges. **Next:** continue on high-value syntrophies; always use the +RECORD's canonical taxon ids (Edison groundings have had errors, e.g. sulfite → CHEBI:16731 *(E)-cinnamaldehyde* instead of CHEBI:17359). NB: when the primary full text isn't retrievable, keep edges to abstract-supported/directly-implied claims and file the rest as a KNOWLEDGE_GAP (000176 is the worked example).