Sully Research Group

Sully Research Group Independent

The mathematics of behavior.

Plants, animals and molecules all move. Each responds to its environment through its own mechanism. We write down the equations that describe that response, then test them in the lab and in an engine.

behavior(t)=F( state(t), environment(t) )\text{behavior}(t) = \mathcal{F}\big(\,\text{state}(t),\ \text{environment}(t)\,\big)
Go deeper The shared method

Three pillars, one question

How does a system respond to its environment?

Same mathematics, three scales. Each pillar is a different mechanism of response.

Pillar I · Chemistry as responsePreclinical / lab

Plants

Plants answer light, stress and predators by making molecules. We map that chemical response to find therapeutic leads.

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d[C]dt=k f(light,stress)−λ[C]\frac{d[C]}{dt} = k\,f(\text{light},\text{stress}) - \lambda[C]
Pillar II · Motion as responseComputational

Animals

Animals answer their surroundings with movement. We measure posture over time and link it to molecular targets.

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xt+1=xt+v(xt,Et) Δt\mathbf{x}_{t+1} = \mathbf{x}_t + \mathbf{v}(\mathbf{x}_t, E_t)\,\Delta t
Pillar III · Reaction as responseIn design

Molecules

Molecules answer heat and pressure by breaking and forming bonds. We predict how biofuel blends burn and test them in a turbojet.

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ΔHc=∑Dbroken−∑Dformed\Delta H_c = \textstyle\sum D_{\text{broken}} - \sum D_{\text{formed}}

Measured output

Projects & results

ComputationalOpen-source software

Global-Chem

Common chemical names mapped to molecular definitions in an open knowledge graph.

26
GitHub stars
3
Repository forks

Public adoption signals, not evidence of scientific accuracy. Download totals are not verified here.

Snapshot: 2026-11-12 · GitHub source

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ComputationalPublished software · JOSS 2020

Cocktail Shaker

Peptide enumeration software for expanding molecular libraries in SMILES.

12
GitHub stars
6
Repository forks

Peer-reviewed software paper: DOI 10.21105/joss.01992. Publication does not establish therapeutic efficacy.

Snapshot: 2026-11-12 · GitHub source

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ComputationalOpen educational resources

Open Cheminformatics Curriculum

Lectures, notebooks and teaching resources organized into an open curriculum.

181
GitHub stars
16
Repository forks
111
Curriculum entries

Reach and resource counts are available; learner completion and learning gains have not been measured here.

Snapshot: 2026-11-12 · GitHub source

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All projects & results

Open tools

Built in the open

Global-Chem

Open chemical knowledge graph

Cocktail Shaker

Peptide library enumeration

COPTIS

Canine oncology target finder

Curriculum

100+ open lectures and notebooks