invitrodb v4.3

The Space team has made the following datasets and collections publicly available. You must be a logged-in member of the Space to access all the datasets and collections.

Datasets

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Assay Description Documents

This includes documentation for the ToxCast assay endpoints is in a format outlined by the OECD Guidance Document 211 (GD211) for describing non-guideline in vitro test methods and their interpretation. The intent of GD 211 is to harmonize non-guideline, in vitro method descriptions to allow assessment of the relevance of the test method for biological responses of interest and the quality of the data produced. This dataset contains reports for 1647 assay endpoints accompanying the invitrodb v4.3 release (Aug 2025). Compiled report is available here: https://clowder.edap-cluster.com/files/. These reports are a work in progress and will be iteratively updated as more information becomes available. Please cite as: "US EPA (2025). ToxCast Assay Description Documentation. https://doi.org/10.23645/epacomptox.6328037.v12"

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MySQL_Data

This includes a sql dump of invitrodb v4.3 with installation instructions available in README.

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Plots

This includes folders by assay source of single and multi-concentration response plots by endpoint.

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Summary_Files

This includes a zip file of summary files (.xlsx or .csv, .Rdata) with descriptions available in README. A few summary files are provided outside zip file for convenience.

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Release_Note

This .html Release Note describes the update of invitrodb between versions 4.2 and 4.3. Invitrodb version 4.3 represents the third full release of the ToxCast database in a new schema designed to accommodate the R package dependency, tcplfit2, which is used in curve-fitting and hit-calling of multi-concentration response data. This invitrodb schema was beta-tested with our research release of invitrodb v4.0 that accompanied the publication “The ToxCast Pipeline: Updates to Curve-Fitting Approaches and Database Structure” (Feshuk et al., 2023 https://www.frontiersin.org/journals/toxicology/articles/10.3389/ftox.2023.1275980) and the release of tcpl v3.0.1.

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Collections

There are no collections associated with this Space.