Standards List
List of Standards that are relevant for OpenTox
Biological
Minimum Information Standards for Biological Experiments (http://en.wikipedia.org/wiki/Minimum_Information_Standards)
Example standards and formats:
- Minimum Information for Biological and Biomedical Investigations (MIBBI) http://mibbi.sourceforge.net/
- Functional Genomics Experiment (FuGE) http://fuge.sourceforge.net/
- MAGE http://www.mged.org/index.html, MIAPE http://www.psidev.info/index.php?q=node/91, ...
- Predictive Model Markup Language (PMML) http://www.dmg.org/pmml-v3-0.html
Toxicity Data
- DSSTox www.epa.gov/ncct/dsstox/
- ToxML www.leadscope.com/toxml.php
- PubChem http://pubchem.ncbi.nlm.nih.gov/
- OECD Harmonised Templates http://www.oecd.org/document/13/0,3343,en_2649_34365_36206733_1_1_1_1,00.html
- IUCLID5 templates
- Standard for Exchange of Non-clinical Data (SEND) e.g., see http://www.cdisc.org/models/send/v2.3/index.html and http://www.pointcross.com/pharma/sendit.htm
Validation
Algorithm Validation
- common best practices like k-fold cross validation, leave-one-out, scrambling
(Q)SAR Validation (Model Validation)
- OECD Principles http://www.oecd.org/dataoecd/33/37/37849783.pdf
- QSAR Model Reporting Format (QMRF) http://qsardb.jrc.it/qmrf/help.html
- QSAR Prediction Reporting Format (QPRF) http://ecb.jrc.it/qsar/qsar-tools/qrf/QPRF_version_1.1.pdf
Reports
- REACH Guidance on Information Requirements and Chemical Safety Assessment http://guidance.echa.europa.eu/docs/guidance_document/information_requirements_en.htm
