Kinase Foundation Model
Version two scores both ligands against the kinase sequence in one pass and returns which of the pair binds harder.
- Pairwise accuracy81.0%
- Above 0.700 confidence96.3%
Nine results, six workstreams, one fortnight. Two models with public sites, a preprint filed to bioRxiv, a second in draft, an exhaustive peptide sweep, and a reverse screen that turns a full day of docking into a minute and a half.
Each with a figure, a page, or a manuscript attached.
5.2 hours across the proteome down to 85 seconds.
Every capped peptide scored against crystallized drugs.
Every figure here is live on eidogen-sertanty.com. Each card opens the page it came from.
Version two scores both ligands against the kinase sequence in one pass and returns which of the pair binds harder.
Ligands filling the same pocket span nearly six orders of magnitude in potency, so a pose is not an affinity.
Reaction chemistry shuffled rather than followed, so the analogs are ones a chemist would not have written down.
An exhaustive sweep of capped peptides that reproduce the pharmacophore of crystallized drugs, and the reverse.
Design that carries its own synthesis, because a gene is a reaction sequence and the blocks that feed each slot.
Two molecules in, the bits each one sets, then both predicted and reference fingerprints on one common axis.
Kinase contact maps built from measured geometry rather than inferred from a sequence alignment.
Two collections compared through one-way hashes, so each side learns the overlap and nothing about the structures.
What landed, in the order it landed.
| Date | Workstream | What happened |
|---|---|---|
| 23 Aug | Kinase model | Pairwise ordering rebuilt with the ligand, sequence, ligand arrangement. |
| 26 Aug | Non-obvious analogs | Full-protocol campaign launched across the food and molecule tiers. |
| 27 Aug | Writing | Canonical scientific voice guide adopted as the controlling drafting standard. |
| 30 Aug | PharmCast | Version ten reconciled: figures regenerated, counts verified three ways. |
| 2 Sep | PharmCast | Preprint submitted to bioRxiv. |
| 6 Sep | Reverse screen | Retrieval and redocking measured across 3,000 held-out queries. |