Toxindex Blog

Thinking out loud on AI-powered chemical risk assessment, regulatory toxicology, and the future of chemical safety.

Resolving Batch Effects in Cell Painting Embeddings

A Cell Painting image of stained cells is turned into a vector so that similar treatments get similar vectors. But the same cells imaged on two different plates get different vectors, because focus, lighting, and dye brightness drift from plate to plate. That drift is a technical artifact the vector should ignore, and often does not. We measure the problem, fix it two ways (a control-anchored normalization and an encoder trained to ignore the plate), and then scale that encoder to the full eleven-laboratory JUMP dataset. Everything runs from a reproducible pipeline.

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Predicting Developmental Neurotoxicity from Chemical Structure

A four-slide deck on a mechanism-anchored ReAct + tools toolchain for developmental-neurotoxicity (DNT) prediction: the method, validation against 122 reference chemicals, an interactive screen of 23 untested chemicals calibrated against known positives and negatives, and a selectable weight-of-evidence case study.

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One Shape for Every Report

Every Flow report comes from a template that validates and structures its underlying data — making each result FAIR: findable, accessible, interoperable, reusable. A gallery of reports, each with the validated JSON behind it.

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ToxIndex for Enterprise Toxicology

A one-page tour of the platform for enterprise customers: what it does, how it's deployed inside your cloud tenant, where your proprietary documents fit, and the questions people most often ask. A structured summary for AI agents lives at the bottom.

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Nineteen Flow Workflows

A catalog of nineteen chemical-safety workflows Flow runs today, grouped by domain. Each card links to a generated sample report or a live Flow run. These are some of our public workflows — enterprise customers get custom workflows built to their internal templates.

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ToxIndex Platform Demo

A short walk-through of the nine tools that make up the ToxIndex platform — crawler, jobs, lists, kiln, sage, flow, gaps, yard, and toxtransformer.

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