Exposure/Risk Analysis-new

 
Microenvironmental/LCA Modeling

Microenvironmental and life cycle analysis (LCA) modeling

Tools

ResourceDeveloperProprietary or Public Domain?
AMEM - ADL Migration Estimation ModelUSEPApublic domain
BenMAP ("estimate the health impacts and economic benefits [...] when populations experience changes in air quality")USEPApublic domain
CalTOXCalifornia DTSCpublic domain
ConsExpo (a set of models "that enables the estimation and assessment of exposure to substances from consumer products that are used indoor and their uptake by humans")RIVMpublic domain
CONTAMNISTpublic domain
COS.SIM ("Agent Based Traffic MicroSimulation")COS.SIM development teampublic domain
Creme - RIFM Aggregate Exposure Model for Fragrance MaterialsCreme Global and RIFMproprietary
DEEM-FCID/ Calendex - Dietary Exposure Evaluation Model-Food Commodity Intake Database/ CalendexUSEPApublic domain
DMR Pollutant Loading Tool - Discharge Monitoring Report Pollutant Loading ToolUSEPApublic domain
EMI - Exposure Model for IndividualsUSEPAproprietary
EPANET ("Models the Hydraulic and Water Quality Behavior of Water Distribution Piping Systems")USEPApublic domain
European AirBase reporting stationsEuropean Environment Agencypublic domain
EUSES - European Union System for the Evaluation of SubstancesEuropean Commission, JRC, IHCPpublic domain
FACET - Flavourings, Additives and food Contact materials Exposure TaskCreme Global and collaboratorspublic domain
GLEAMviz - Global Epidemic and Mobility modelNortheastern University, ISI Foundation and Indiana Universitypublic domain
iSTREEMAmerican Cleaning Institutepublic domain
i-SVOC ("application for dynamic modeling of the emissions, transport, sorption, and distribution of semi-volatile organic compounds (SVOCs) in the indoor environment")USEPApublic domain
MCCEM - Multi-Chamber Concentration and Exposure ModelVersar Inc. and USEPApublic domain
OpenFOAMOpenCFD Ltd, ESI Grouppublic domain
P2P - Pollution Prevention Progress (see TRACI)USEPApublic domain
PhoenicsCHAMproprietary
PIRAT - Pesticide Inert Risk Assessment ToolUSEPApublic domain
PRoTEGE - Prioritization/Ranking of Toxic Exposures with GIS ExtensionComputational Chemodynamics Laboratoryproprietary
RaidarCEMC, Canadapublic domain
SWIMODEL - Swimmer Exposure Assessment ModelUSEPApublic domain
SystemsRealityUSEPAproprietary
TRACI - Tool for the Reduction and Assessment of Chemical and other Environmental Impacts (previously, P2P)USEPApublic domain
USEtox - UNEP-SETAC (Life Cycle Initiative) ToxUSEtox development teampublic domain
VegScape - Vegetation Condition ExplorerUSDA National Agricultural Statistics Servicepublic domain

Databases

ResourceDeveloperProprietary or Public Domain?
AHS - American Housing SurveyUS Census Bureaupublic domain
AllergomeAllergome platform development teampublic domain
American Cleaning Institute Cleaning Product Ingredient InventoryAmerican Cleaning Institutepublic domain
ATUS - American Time Use SurveyU.S. Bureau of Labor Statisticspublic domain
BRFSS - Behavioral Risk Factor Surveillance SystemCDCpublic domain
California Safe Cosmetics Program Product DatabaseCalifornia Safe Cosmetics Program, California Department of Public Healthpublic domain
caNanoLab - cancer Nanotechnology LaboratoryNCI (National Cancer Institute), NIHpublic domain
CBECS - Commercial Buildings Energy Consumption SurveyU.S. Energy Information Administrationpublic domain
CDC WONDER - Wide-ranging Online Data for Epidemiologic ResearchCDCpublic domain
Census of AgricultureUSDA NASSpublic domain
CHAD - Consolidated Human Activity DatabaseUSEPApublic domain
ChemViewUSEPApublic domain
Child-Specific Exposure Factors HandbookUSEPApublic domain
Consumer Expenditure SurveyU.S. Bureau of Labor Statisticspublic domain
Consumer Products Inventory ("inventory of nanotechnology-based consumer products introduced on the market")The Project on Emerging Nanotechnologiespublic domain
CPCat - Chemical and Product CategoriesUSEPApublic domain
CPID - Consumer Product Information DatabaseCDC and DeLima Associates, Virginia, USApublic domain
CSFII - Continuing Survey of Food Intakes by IndividualsUSDApublic domain
DSID - Dietary Supplement Ingredient DatabaseUSDA Nutrient Data Laboratory and Office of Dietary Supplements, NIHpublic domain
DWS - Drinking Water StandardsUSEPApublic domain
EAFUS - Everything Added to Food in the United StatesUSFDApublic domain
ECETOC Science Areas - European Centre for Ecotoxicology and Toxicology of Chemicals Science AreasECETOCpublic domain
EPA-Expo-Box - EPA’s EXPOsure toolBOX ("A Toolbox for Exposure Assessors")USEPApublic domain
Esri Business AnalystEsriproprietary
ExpoCastDB - Exposure Forecaster DatabaseUSEPApublic domain
FACET - Flavourings, Additives and food Contact materials Exposure TaskCreme Global and collaboratorspublic domain
Factual ("Global Products with Ingredients and Nutrition")Factual Inc.public domain
GNPD - Mintel Global New Products DatabaseMintel Group Ltd.proprietary
GoodGuide ("source of information on health, environmental, and social impacts of consumer products")GoodGuide teampublic domain
HEDS - Human Exposure Database SystemUSEPApublic domain
HPD - Household Products DatabaseNational Library of Medicinepublic domain
HPVIS - High Production Volume Information SystemUSEPApublic domain
iemHUB ("online community resource for those involved in the development, evaluation, and application of environmental models")iemHUB teampublic domain
Information Collection Rule Drinking Water Microbial And Disinfection Byproduct InformationUSEPApublic domain
InterNanoNational Nanomanufacturing Networkpublic domain
Nanomaterial RegistryRTI Internationalpublic domain
Nanowerk Nanotechnology Products and ApplicationsNanowerkpublic domain
National Nutrient Database for Standard ReferenceUSDApublic domain
NCOD - National Contaminant Occurrence DatabaseUSEPApublic domain
NHANES - National Health and Nutrition Examination SurveyCDCpublic domain
NHEXAS - National Human Exposure Assessment Survey (project completed)USEPApublic domain
NOES - National Occupational Exposure SurveyCDC - NIOSHpublic domain
NPDWR - National Primary Drinking Water RegulationsUSEPApublic domain
NWIS - National Water Information SystemUS Geological Surveypublic domain
PDP - Pesticide Data ProgramUSDA ARSpublic domain
RIOPA - Relationships of Indoor, Outdoor, and Personal AirEOHSI and Health Effects Institutepublic domain
SDWIS - Safe Drinking Water Information SystemUSEPApublic domain
Skin Deep DatabaseEnvironmental Working Grouppublic domain
SocDynamics.org (Modeling Social Dynamics)SocDynamics.org development teampublic domain
SPARTAN - Surface PARTiculate mAtter NetworkSPARTAN Network teampublic domain
TDS - Total Diet StudyUSFDApublic domain
TEAM - Total Exposure Assessment Methodology StudyUSEPApublic domain
The NanodatabaseThe Ecological Council, DTU Environment and Danish Consumer Council, Denmarkpublic domain
United Nations Statistical YearbookUnited Nationspublic domain
US Census SurveyUS Census BureauPublic Domain
WATERS - Watershed Assessment, Tracking & Environmental Results SystemUSEPApublic domain
WWEIA - What We Eat In America, NHANESUSDA ARS and CDCpublic domain
Socioeconomic/LSB Modeling

Socioeconomic and Life Stage Behavior (LSB) modeling

Tools

ResourceDeveloperProprietary or Public Domain?
Agent Analyst ("Agent Based Modeling Extension for ArcGIS")University of Redlands, Argonne National Laboratorypublic domain
AMP - Agent Modeling PlatformEclipse Foundationpublic domain
ANTHROPAC ("program for cultural domain analysis")Analytic Technologiespublic domain
AnyLogic ("simulation tool that supports Discrete Event, Agent Based, and System Dynamics Simulation")AnyLogic Companyproprietary
Ascape ("developing and exploring general-purpose agent-based models")Ascape development teampublic domain
DIVA-GIS ("mapping and geographic data analysis")DIVA-GIS development teampublic domain
EIO-LCA - Economic Input-Output Life Cycle AssessmentGreen Design Institute, Carnegie Mellon University, PApublic domain
E-Net ("software for analyzing ego network data")Analytic Technologiespublic domain
Envision ("A spatially explicit, distributed, multiagent-based framework for policy assessment and alternative futuring")Envision development team, Oregon State Universitypublic domain
HLM - Hierarchical Linear and Nonlinear ModelingScientific Software International, Inc.proprietary
J-MADeM - Multi-modal Agent Decision Making (library integrated into Jason)MADeM development teampublic domain
Keyplayer ("Finding sets of key players in a network")Analytic Technologiespublic domain
Krackplot ("Network visualization")Analytic Technologiespublic domain
LISREL ("for structural equation modeling")Scientific Software International, Inc.proprietary
MASON - Multi-Agent Simulator Of NeighborhoodsGMU Evolutionary Computation Laboratory and GMU Center for Social Complexitypublic domain
MATSim - Multi-Agent Transport SimulationI.L.S.T.S., Technische Universität Berlin; I.T.P.S., Swiss Federal Institute of Technology, Zurich and Senozonpublic domain
Mobidyc - MOdelling Based on Individuals for the DYnamics of CommunitiesMobidyc development teampublic domain
NetDraw ("program for visualizing social network data")Analytic Technologiespublic domain
NetLogoUri Wilensky, Center for Connected Learningpublic domain
PajekBatagelj et al., University of Ljubljana, Sloveniaproprietary
Pandora ("HPC Agent-Based Modelling framework")Barcelona Supercomputing Centerpublic domain
RepastArgonne National Laboratorypublic domain
SOARS - Spot Oriented Agent Role SimulatorSOARS Project and Deguchi Lab, Tokyo Institute of Technologypublic domain
SPADE - Smart Python multi-Agent Development EnvironmentSPADE development teampublic domain
SPARK - Simple Platform for Agent-based Representation of KnowledgeSPARK development teampublic domain
StarLogo/ OpenStarLogoMITpublic domain
SugarscapeSugarscape development teampublic domain
SwarmSwarm Development Grouppublic domain
UCINET ("software package for the analysis of social network data")Analytic Technologies.proprietary
Worldmapper ("collection of world maps, where territories are re-sized on each map according to the subject of interest")Worldmapper Teampublic domain

Databases

ResourceDeveloperProprietary or Public Domain?
AHS - American Housing SurveyUS Census Bureaupublic domain
American Communities ProjectAmerican Communities Project, American University, Washington, DCpublic domain
ATUS - American Time Use SurveyU.S. Bureau of Labor Statisticspublic domain
CBECS - Commercial Buildings Energy Consumption SurveyU.S. Energy Information Administrationpublic domain
CGD - Customized Geographic DatabaseBiota of North America Program (BONAP)public domain
CHAD - Consolidated Human Activity DatabaseUSEPApublic domain
CHSI - Community Health Status IndicatorsCDCpublic domain
Consumer Expenditure SurveyU.S. Bureau of Labor Statisticspublic domain
CPS - Current Population SurveyUS Census Bureaupublic domain
CSFII - Continuing Survey of Food Intakes by IndividualsUSDApublic domain
DIVA-GIS (GIS data by country)DIVA-GIS development teampublic domain
Esri Business AnalystEsriproprietary
Food Environment AtlasUSDApublic domain
GeoLytics Demographics Estimates/ ProjectionsGeoLytics, Inc.proprietary
Health Indicators WarehouseNational Center for Health Statisticspublic domain
Index Mundi - MapsIndexMundi development teampublic domain
Italian demographics dataISTATpublic domain
MapUSA - Human mapping projectJohn Loganpublic domain
NHAPS - The National Human Activity Pattern SurveyUSEPApublic domain
SocDynamics.org (Modeling Social Dynamics)SocDynamics.org development teampublic domain
Statistical AbstractUS Census Bureaupublic domain
TIGER - Topologically Integrated Geographic Encoding and ReferencingUS Census Bureaupublic domain
United Nations Statistical YearbookUnited Nationspublic domain
US Census Population DatabaseUS Census BureauPublic Domain
US Census SurveyUS Census BureauPublic Domain
US Economic CensusUS Census Bureaupublic domain
US Health Map (Interactive Health Trends Map of US at County level for both Genders)Institute for Health Metrics and Evaluation (IHME)public domain
WHO Global Health Observatory Map GalleryWorld Health Organization (WHO)public domain
World Bank Open Data ("free and open access to data about development in countries around the globe")The World Bank Grouppublic domain
WWEIA - What We Eat In America, NHANESUSDA ARS and CDCpublic domain
Cumulative/Aggregate Exposures

Cumulative and aggregate exposure modeling for individuals and populations

Tools

ResourceDeveloperProprietary or Public Domain?
CARES - Cumulative and Aggregate Risk Evaluation SystemCropLife America, ILSI Research Foundationpublic domain
C-FERST - Community-Focused Exposure and Risk Screening ToolUSEPApublic domain
ChemSTEER - Chemical Screening Tool For Exposures & Environmental ReleasesUSEPApublic domain
CropScape ("crop-specific land cover data layer created annually for the continental United States")USDA National Agricultural Statistics Servicepublic domain
DEEM-FCID/ Calendex - Dietary Exposure Evaluation Model-Food Commodity Intake Database/ CalendexUSEPApublic domain
DEPM - Dietary Exposure Potential ModelUSEPApublic domain
DMR Pollutant Loading Tool - Discharge Monitoring Report Pollutant Loading ToolUSEPApublic domain
E-FAST - Exposure and Fate Assessment Screening ToolUSEPApublic domain
EMI - Exposure Model for IndividualsUSEPAproprietary
European AirBase reporting stationsEuropean Environment Agencypublic domain
FRAMES-3MRA - Multimedia, Multi-pathway, Multi-receptor Exposure and Risk AssessmentUSEPApublic domain
HAPEM - Hazardous Air Pollutant Exposure ModelUSEPApublic domain
LifelineLifeLine Groupproprietary
MENTOR-2E - Modeling ENvironment for TOtal Risk studies for Emergency Event applicationsComputational Chemodynamics Laboratoryproprietary
MENTOR-4M - Modeling ENvironment for TOtal Risk studies for Multiple co-occurring contaminants and Multimedia, Multipathway, Multiroute exposuresComputational Chemodynamics Laboratoryproprietary
MEPAS - Multimedia Environmental Pollutant Assessment SystemPacific Northwest National Laboratorypublic domain
PIRAT - Pesticide Inert Risk Assessment ToolUSEPApublic domain
RESRAD - RESidual RADioactiveArgonne National Laboratorypublic domain
SHEDS Multimedia - Stochastic Human Exposure and Dose Simulation modelUSEPApublic domain
SHEDS-AIRTOXICS - Stochastic Human Exposure and Dose Simulation for Air ToxicsUSEPAproprietary
SHEDS-Pesticides - Stochastic Human Exposure and Dose Simulation Model for PesticidesUSEPAproprietary
SHEDS-PM - Stochastic Human Exposure and Dose Simulation for Particulate MatterUSEPAproprietary
SHEDS-WOOD - Stochastic Human Exposure and Dose Simulation Model for Wood PreservativesUSEPApublic domain
VegScape - Vegetation Condition ExplorerUSDA National Agricultural Statistics Servicepublic domain

Databases

ResourceDeveloperProprietary or Public Domain?
AirBase ("European air quality database")European Environment Agency and European Topic Centre on Air Pollution and Climate Change and Mitigation (ETC/ACM)public domain
ATUS - American Time Use SurveyU.S. Bureau of Labor Statisticspublic domain
California Safe Cosmetics Program Product DatabaseCalifornia Safe Cosmetics Program, California Department of Public Healthpublic domain
CHAD - Consolidated Human Activity DatabaseUSEPApublic domain
Child-Specific Exposure Factors HandbookUSEPApublic domain
Cosmeticsinfo.orgPersonal Care Products Councilpublic domain
CPID - Consumer Product Information DatabaseCDC and DeLima Associates, Virginia, USApublic domain
EPA-Expo-Box - EPA’s EXPOsure toolBOX ("A Toolbox for Exposure Assessors")USEPApublic domain
ExpoCastDB - Exposure Forecaster DatabaseUSEPApublic domain
EXPOLIS DatabaseMatti Jantunen, KTL Air Hygiene Laboratory, Finlandpublic domain
Exposure Factors HandbookUSEPApublic domain
Factual ("Global Products with Ingredients and Nutrition")Factual Inc.public domain
GerES - German Environmental SurveyThe Federal Environment Agency, Germanypublic domain
HEDS - Human Exposure Database SystemUSEPApublic domain
iemHUB ("online community resource for those involved in the development, evaluation, and application of environmental models")iemHUB teampublic domain
InterNanoNational Nanomanufacturing Networkpublic domain
NHANES - National Health and Nutrition Examination SurveyCDCpublic domain
NHEXAS - National Human Exposure Assessment Survey (project completed)USEPApublic domain
RIOPA - Relationships of Indoor, Outdoor, and Personal AirEOHSI and Health Effects Institutepublic domain
SPARTAN - Surface PARTiculate mAtter NetworkSPARTAN Network teampublic domain
TEACH - Toxicity and Exposure Assessment for Children's HealthUSEPApublic domain
United Nations Statistical YearbookUnited Nationspublic domain
Biomarkers

Tools

ResourceDeveloperProprietary or Public Domain?
Affymetrix Expression ConsoleAffymetrixproprietary
Affymetrix GeneChip Sequence Analysis SoftwareAffymetrixproprietary
Affymetrix Transcriptome Analysis ConsoleAffymetrixproprietary
BEs - Biomonitoring EquivalentsSummit Toxicology, LLPpublic domain
BiQ Analyzer ("software tool for DNA methylation analysis")Max Planck Institute for Informatics, Germanypublic domain
Bismark (tool to map bisulfite converted sequence reads and determine cytosine methylation states)Babraham Bioinformaticspublic domain
CMARRT (A tool for the analysis of ChIP-chip data from tiling arrays by incorporating the correlation structure)Keles Research Group, University of Wisconsinpublic domain
CNVFinder - Copy Number Variant FinderWellcome Trust Sanger Institute, UKpublic domain
CompassBruker Daltonicsproprietary
Compass OpenAccessBruker Daltonicsproprietary
CSEM - Multi-read Allocation for ChIP-seqKeles Research Group, University of Wisconsinpublic domain
Cufflinks - Transcript assembly, differential expression and regulation for RNA-Seq samplesUC Berkeley, JHU, and Caltechpublic domain
CummeRbund - To analyze Cufflinks RNA-Seq outputMIT and Harvardpublic domain
DBChIP - program to detect differentially bound sharp binding sites across multiple conditionsKeles Research Group, University of Wisconsinpublic domain
Disease/ Phenotype web-PAGE ("disease based gene set analysis of microarray gene expression")Gene Expression and Genomics Unit, NIA, NIHpublic domain
EIGENSOFT ("combines functionality from our population genetics methods [...] and our EIGENSTRAT stratification correction method")EIGENSOFT development team, Harvard School of Public Healthpublic domain
EpiGRAPH - for advanced (epi-) genome analysis and predictionEpiGRAPH development teampublic domain
flexImagingBruker Daltonicsproprietary
FunDO ("Exploring Genes Using Functional Disease Ontology Annotations")Northwestern University Biomedical Informatics Centerpublic domain
GeneMANIA - "predict the function of [...] genes and gene sets"Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Canadapublic domain
GeneSpringAgilent Technologiesproprietary
Genotyping ConsoleAffymetrix Incproprietary
HDMFinder ("Methylation prediction software")Zhang Lab, Cold Spring Harbor Laboratory, NYpublic domain
Ingenuity Variant AnalysisQiagenproprietary
IPA - Ingenuity Pathway AnalysisQiagen N.V.proprietary
jMOSAiCS - Joint Analysis of Multiple ChIP-seq DatasetsKeles Research Group, University of Wisconsinpublic domain
MarkerViewAB Sciexproprietary
MascotMatrix Scienceproprietary
MENTOR - Modeling ENvironment for TOtal Risk studiesComputational Chemodynamics Laboratoryproprietary
MetaboliteToolsBruker Daltonicsproprietary
Methylator ("An SVM Based Method for DNA Methylation Prediction")Methylator Development Teampublic domain
MIDAS - Multi Instance Data Acquisition SystemScience and Technology Facilities Council, UKpublic domain
MOABS - MOdel based Analysis of Bisulfite Sequencing dataDeqiang Sun, Baylor College of Medicinepublic domain
Monocle - toolkit for analyzing single-cell gene expression experimentsCole Trapnellpublic domain
MOSAiCS - MOdel-based one and two Sample Analysis and Inference for ChIP-Seq DataKeles Research Group, University of Wisconsinpublic domain
mzMINEMZmine team (open-source)public domain
NucDe - A non-homogeneous hidden-state model on first order differences for automatic detection of nucleosome positions from MNase-chip and MNase-seq dataKeles Research Group, University of Wisconsinpublic domain
OmicsOffice for MicroarraysIntegromicsproprietary
PLINK ("Whole genome association analysis toolset")PLINK development team, CHGR - Massachusetts General Hospital, Boston, MApublic domain
PolyBayes ("automated analysis of single-nucleotide polymorphism (SNP) discovery in redundant DNA sequences")Washington University Genome Sequencing Centerpublic domain
Polyphred (single nucleotide substitution identification)University of Washington (Brent Ewing, Phil Green, David Gordon et al.)public domain
ProfileAnalysisBruker Daltonicsproprietary
ProteinScapeBruker Daltonicsproprietary
ProteoIQ ("qualitative and quantitative suite for proteomics")Premier Biosoftproprietary
SCiLS ("Statistical analysis of MALDI imaging data")SCiLS GmbH and Bruker Daltonicsproprietary
SICER ("clustering approach for identification of enriched domains from histone modification ChIP-Seq data")W. Peng lab, George Washington Universitypublic domain
SMART-BS-Seq - Specific Methylation Analysis and Report Tool for BS-Seq dataPython Software Foundationpublic domain
SNAP - Screening for Non-Acceptable PolymorphismsRost Lab, Columbia University, New Yorkpublic domain
SNAP - SNP Annotation and Proxy SearchSNAP Development Teampublic domain
SNP-o-matic (analysis of Solexa reads and comparison with reference)Sanger Institutepublic domain
SNPTrackUSFDApublic domain
SUCcESS (Integration of quantitative information from ChIP-chip experiments into motif finding)Keles Research Group, University of Wisconsinpublic domain
TileHGMM (Mixture modeling for genome-wide localization of transcription factors)Keles Research Group, University of Wisconsinpublic domain
TopSpin (NMR data analysis and acquisition and processing of NMR spectra)Bruker Corporationproprietary
Trinotate ("Transcriptome Functional Annotation and Analysis")Trinotate development teampublic domain
Tute ("web application [...] in the cloud and [...] analyze and annotate entire human genomes")Tute Genomicsproprietray
X-TileYale Universitypublic domain

Databases

ResourceDeveloperProprietary or Public Domain?
AHEAD - Alliance for Human Epigenomics and DiseaseAHEAD Task Forcepublic domain
ArrayExpressEMBL-EBIpublic domain
BioCartaBioCarta LLCproprietary
BioGRID - Biological General Repository for Interaction DatasetsBioGRID Teampublic domain
Biomarkers Database (last updated in August 2004)USEPApublic domain
BOSS - Biomarkers of Oxidative Stress StudyNIEHSpublic domain
CGAP - Cancer Genome Anatomy ProjectNCI (National Cancer Institute), NIHpublic domain
ChIPBase ("decoding transcription factor binding maps [...] and transcriptional regulation [...] from ChIP-Seq data")Qu lab at Sun Yat-sen University (J. Yang)public domain
CNV Project Data - Copy Number Variation Project DataWellcome Trust Sanger Institute, UKproprietary
COSMIC - Catalogue Of Somatic Mutations In CancerWellcome Trust Sanger Institute, UKpublic domain
CureTogether (a blog where "patients [...] share quantitative information on over 500 medical conditions")CureTogether teampublic domain
dbGaP - Database of Genotypes and PhenotypesNational Center for Biotechnology Information, NLM, NIHpublic domain
dbSNPNational Center for Biotechnology Information, NLM, NIHpublic domain
EADB - Estrogenic Activity DatabaseUSFDApublic domain
EDKB - Endocrine Disruptor Knowledge BaseUSFDApublic domain
ENCODE - Encyclopedia Of DNA ElementsNHGRI, NIHpublic domain
EPA-Expo-Box - EPA’s EXPOsure toolBOX ("A Toolbox for Exposure Assessors")USEPApublic domain
EPR - Environmental Polymorphisms RegistryNIEHSpublic domain
EuPathDB - Eukaryotic Pathogen Database ResourcesEuPathDB Project Teampublic domain
ExpoCastDB - Exposure Forecaster DatabaseUSEPApublic domain
GAC - Genetic Alterations in CancerNIEHSpublic domain
GeMDBJ - Genome Medicine Database of JapanSGMGP (The Study Groups of Millennium Genome Project for Alzheimer's disease, Cancer, Diabetes Mellitus, Hypertension, Asthma and Pharmacogenetics)public domain
GenAge DatabaseHAGR - Human Ageing Genomic Resourcespublic domain
GenBankNational Center for Biotechnology Information, NLM, NIHpublic domain
Gene Expression AtlasEMBL-EBIpublic domain
Gene FinderNCI (National Cancer Institute), NIHpublic domain
GeneLocWeizmann Institute of Sciencepublic domain
GeneToxNLMpublic domain
Genomatix SuiteGenomatix Software GmbHproprietary
GENSAT - Gene Expression Nervous System ATlas databaseRockefeller Universitypublic domain
GVS - Genome Variation ServerUniversity of Washingtonpublic domain
GWAS Catalog - Genome-Wide Association Studies CatalogNHGRI Division of Genomic Medicine, NIHpublic domain
GWASdbGWASdb teampublic domain
HapMapInternational HapMap Projectpublic domain
HEP - Human Epigenome ProjectHEP Consortiumpublic domain
HEROIC - High-Throughput Epigenetic Regulatory Organization in Chromatin ProjectHEROIC Project Consortiumpublic domain
HGMD - Human Gene Mutation Database (integrated with Ingenuity Variant Analysis) BIOBASEproprietary
HIV Molecular Immunology DatabaseLos Alamos National Laboratorypublic domain
HIV Sequence databaseLos Alamos National Laboratorypublic domain
HMPDACC Data Browser (Human Microbiome Project DACC Data Portal)NIH Human Microbiome Project DACCpublic domain
Human DNA Polymerase Gamma Mutation DatabaseNIEHSpublic domain
IARC TP53 DatabaseIARC, WHOpublic domain
IRD - Influenza Research DatabaseIRD Project Teampublic domain
IUPHAR-DB - International Union of Basic and Clinical Pharmacology DatabaseIUPHAR-DB development teampublic domain
JSNP - Japanese Single Nucleotide PolymorphismsUniversity of Tokyo and the Japan Science and Technology Agency (JST)public domain
KEGG - Kyoto Encyclopedia of Genes and GenomesKanehisa Laboratories, Japanpublic domain
KEGG DRUGKanehisa Laboratories, Japanpublic domain
KUPKB - The Kidney and Urinary Pathway Knowledge BaseINSERM, France and University of Manchester, UKpublic domain
MeInfoTextNational Taiwan Universitypublic domain
MethyCancer - Database for studying human DNA Methylation and CancerChinese Academy of Sciencespublic domain
microRNA.orgpublic domain
Mitelman Database of Chromosome Aberrations and Gene Fusions in CancerUniversity Hospital, Lund, Swedenpublic domain
NCBI GEO - NCBI Gene Expression Omnibus databaseNational Center for Biotechnology Information, NLM, NIHpublic domain
NHANES - National Health and Nutrition Examination SurveyCDCpublic domain
NHATS - National Human Adipose Tissue SurveyUSEPApublic domain
NHEXAS - National Human Exposure Assessment Survey (project completed)USEPApublic domain
NIEHS SNPs Exome Variant ServerNIEHS and University of Washingtonpublic domain
NIH Human Microbiome Project (HMP) Roadmap ProjectNational Center for Biotechnology Information, NLM, NIHpublic domain
NIMH-RGR Data ExplorerNIMH Center for Collaborative Genomic Studies on Mental Disorderspublic domain
NMPDR - National Microbial Pathogen Data Resource (no longer maintained; see PATRIC)NMPDR Project Teampublic domain
Nonhuman Primate HIV/SIV Vaccine Trials DatabaseLos Alamos National Laboratorypublic domain
OMIM - Online Mendelian Inheritance in Man ("Online Catalog of Human Genes and Genetic Disorders")Johns Hopkins University and NCBI, NLM, NIHpublic domain
OncomineLife Technologies Corporationproprietary
Pan Asian SNP DatabasePan-Asian SNP Consortiumpublic domain
Pathogen PortalPathogen Portal Project Teampublic domain
PATRIC - Pathosystems Resource Integration CenterPATRIC Project Teampublic domain
PD map - Parkinson’s disease mapLCSB and Hiroaki Kitano team at SBI, Tokyopublic domain
Progenetix ("genomic copy number aberrations in cancer")Baudis Laboratory, University of Zurichpublic domain
PubMethBioBix, Laboratory for Bioinformatics and Computational Genomics, Ghent University, Belgiumpublic domain
ReactomeReactome teampublic domain
RefSeq - NCBI Reference Sequence DatabaseNational Center for Biotechnology Information, NLM, NIHpublic domain
SCAN ("SNP and CNV Annotation Database")The University of Chicagopublic domain
SCan-MarK Explorer ("Sophic’s Cancer Biomarker Knowledge Environment")Sophic Alliance Inc.proprietary
SKY/M-FISH and CGH DatabaseNational Center for Biotechnology Information, NLM, NIH and National Cancer Institute, NIHpublic domain
SMD - Stanford Microarray Database (see PUMAdb)Stanford Universitypublic domain
SNP500CancerSAIC-Frederick, NCI-FCRDC, MDpublic domain
SNPinfo Web ServerNIEHSpublic domain
StemBase (gene expression data obtained from stem cells)Canadian Stem Cell Networkpublic domain
TB Drug Target DatabaseTB Drug Target Database development teampublic domain
TEAM - Total Exposure Assessment Methodology StudyUSEPApublic domain
Human Health Risks

Modeling human health risks

Tools

ResourceDeveloperProprietary or Public Domain?
ALOHA - Areal Locations of Hazardous AtmospheresNOAApublic domain
ALOHA (Areal Locations of Hazardous Atmospheres) ArcMap Import ToolsUS NOAA Office of Response and Restorationpublic domain
BenMAP ("estimate the health impacts and economic benefits [...] when populations experience changes in air quality")USEPApublic domain
BMDS - Benchmark Dose SoftwareUSEPApublic domain
CARBDOSEUSEPApublic domain
Cefic LRI Toolbox - Long-range Research Initiative ToolboxCeficpublic domain
CEPST - Chemical Exposure Priority Setting ToolThe LifeLine Grouppublic domain
C-FERST - Community-Focused Exposure and Risk Screening ToolUSEPApublic domain
DALY Calculator - Disability-Adjusted Life Year CalculatorDALY Calculator development teampublic domain
Disease/ Phenotype web-PAGE ("disease based gene set analysis of microarray gene expression")Gene Expression and Genomics Unit, NIA, NIHpublic domain
FARE MicrobialExponent, Inc. and USFDApublic domain
FDA-iRISKUSFDApublic domain
MFFRST - Metal Finishing Facility Risk Screening ToolUSEPApublic domain
STEM - Spatiotemporal Epidemiological ModelerEclipsepublic domain
UR3M - Unified Radon Relative Risk ModelUSEPApublic domain

Databases

ResourceDeveloperProprietary or Public Domain?
BCF database - Bio-concentration Factors Gold standard databaseCefic LRI and EURASpublic domain
Comprehensive Cancer InformationNCI (National Cancer Institute), NIHpublic domain
CPDB - Carcinogenic Potency DatabaseCPDB development teampublic domain
ECETOC Science Areas - European Centre for Ecotoxicology and Toxicology of Chemicals Science AreasECETOCpublic domain
EPA-Expo-Box - EPA’s EXPOsure toolBOX ("A Toolbox for Exposure Assessors")USEPApublic domain
EuPathDB - Eukaryotic Pathogen Database ResourcesEuPathDB Project Teampublic domain
ExpoFacts - European Exposure Factors SourcebookEuropean Commission, JRC, IHCPpublic domain
Exposure Factors HandbookUSEPApublic domain
GAC - Genetic Alterations in CancerNIEHSpublic domain
GeMDBJ - Genome Medicine Database of JapanSGMGP (The Study Groups of Millennium Genome Project for Alzheimer's disease, Cancer, Diabetes Mellitus, Hypertension, Asthma and Pharmacogenetics)public domain
HEDS - Human Exposure Database SystemUSEPApublic domain
HERO - Health and Environmental Research Online databaseUSEPApublic domain
IARC Monographs- ClassificationsIARC, WHOpublic domain
ICRP - International Commission on Radiological Protection - Database of Dose CoefficientsICRPpublic domain
IRIS - Integrated Risk Information SystemUSEPApublic domain
NATA - National Air Toxics AssessmentsUSEPApublic domain
National Toxicology Program Technical ReportsNIEHSpublic domain
NCTRlcdb - NCTR Liver Cancer DatabaseUSFDApublic domain
PatientsLikeMe (network of patients sharing experiences on diseases)PatientsLikeMe teampublic domain
ToxGuides™ATSDR, CDCpublic domain
Toxic Substances PortalATSDR, CDCpublic domain
Unregulated Contaminant Monitoring dataUSEPApublic domain
US Census Population DatabaseUS Census BureauPublic Domain
US Census SurveyUS Census BureauPublic Domain
Ecological Risks

Modeling ecological risks from chemicals

Tools

ResourceDeveloperProprietary or Public Domain?
2MOD ("estimate the relative likelihoods of a model of immigration-drift equilibrium versus drift since a certain time")2MOD team (M. Beaumont)public domain
ACE - Acute-to-Chronic Estimation with Time-Concentration-Effect ModelsUSEPApublic domain
AGDISP - AGricultural DISPersalUSDA Forest Servicepublic domain
AgDRIFTUSEPA, USDA Forest Service and Spray Drift Task Forcepublic domain
AQUATOX ("simulation model for aquatic systems")USEPA and R. Park, Ecomodelingpublic domain
AquiferWin32ESI Ltd.proprietary
ASTER - Assessment Tools for the Evaluation of RiskUSEPAproprietary
ATTILA - Analytical Tools Interface for Landscape AssessmentsUSEPApublic domain
BASS - Bioaccumulation and Aquatic System SimulatorUSEPApublic domain
BIOPLUME III ("simulating the natural attenuation of organic contaminants in groundwater")US Air Force (Groundwater Services, Inc.) and the USEPApublic domain
BLM - Biotic Ligand ModelHydroQualpublic domain
bsim-bccs ("Models the stochastic interactions of bacteria and particles in a fluid based environment")bsim-bccs development teampublic domain
CalTOXCalifornia DTSCpublic domain
CASCADEAlterra and Plant Research Internationalpublic domain
CE-QUAL-ICMU.S. Army Corps of Engineerspublic domain
CE-QUAL-W2U.S. Army Corps of Engineers and Portland State Universitypublic domain
ChemStat ("statistical analysis of ground water monitoring data at RCRA facilities")Starpoint Software Inc.proprietary
COMBO - COral Mortality and Bleaching OutputCOMBO Teampublic domain
CormasCormas development team, Ciradpublic domain
DEBToxUniversity of Amsterdampublic domain
Defra Risk AssessmentDefra team and Department for Environment, Food & Rural Affairspublic domain
DFLOWUSEPApublic domain
DMR Pollutant Loading Tool - Discharge Monitoring Report Pollutant Loading ToolUSEPApublic domain
DROPLETAlterra and Wageningen UR, The Netherlandspublic domain
DUST ("model to calculate the dermal uptake of pesticides by birds and mammals")USEPApublic domain
ECOSAR - Ecological Structure Activity RelationshipsSyracuse Research Corporation and USEPApublic domain
E-FAST - Exposure and Fate Assessment Screening ToolUSEPApublic domain
EMSOFT - Exposure Model for Soil-Organic Fate and TransportRTPpublic domain
EwE - Ecopath with EcosimInternational Center for Living Aquatic Resources Management, Philippinespublic domain
EXAMS - Exposure Analysis Modeling SystemUSEPApublic domain
FGETS - Food and Gill Exchange of Toxic SubstancesUSEPApublic domain
FIRST - FQPA Index Reservoir Screening ToolUSEPApublic domain
FOCUS - FOrum for Co-ordination of pesticide fate models and their USeFOCUS team, EU Commissionpublic domain
FRAMES-3MRA - Multimedia, Multi-pathway, Multi-receptor Exposure and Risk AssessmentUSEPApublic domain
GARR - Gross Alpha Radium RegulationUSEPApublic domain
GBPCALC - Gross Beta Photon CalculatorUSEPApublic domain
GENEEC2 - Generic Estimated Environmental ConcentrationUSEPApublic domain
Groundwater Vistas ("3D groundwater flow and contaminant transport modeling, calibration and optimization using the MODFLOW suite of codes")Groundwater Vistas development teamproprietary
GUTS - General Unified Threshold model for SurvivalGUTS teampublic domain
HAIR - HArmonized environmental Indicators for pesticide RiskAlterra and Wageningen UR, The Netherlandspublic domain
HexSim (previously PATCH)USEPApublic domain
IONEX - Ion ExchangeUSEPApublic domain
IsoConcUSEPApublic domain
IsoErrorUSEPApublic domain
IsoSourceUSEPApublic domain
iSTREEMAmerican Cleaning Institutepublic domain
KABAM - Kow (based) Aquatic BioAccumulation ModelUSEPApublic domain
MASTEP - Metapopulation model for Assessing Spatial and Temporal Effects of PesticidesAlterra and Wageningen UR, The Netherlandsproprietary
Mercury MapsUSEPApublic domain
NWPCAM - Nation Water Pollution Control Assessment ModelUSEPApublic domain
P2P - Pollution Prevention Progress (see TRACI)USEPApublic domain
PATCH - Program to Assist in Tracking Critical Habitat (see HexSim)USEPApublic domain
PEARL - Pesticide Emission Assessment at Regional and Local scales, GeoPEARLAlterra, PBL and RIVMpublic domain
PERPEST - Predicts the Ecological Risks of PESTicides in freshwater ecosystemsAlterra and Wageningen UR, The Netherlandspublic domain
PFAM - Pesticides in Flooded Application ModelUSEPApublic domain
PRIMET - Pesticides RIsks in the tropics to Man, Environment and TradeAlterra and Wageningen UR, The Netherlandspublic domain
PRZM/EXAMS ShellUSEPApublic domain
PRZM-GWUSEPApublic domain
QUAL2E (Enhanced Stream Water Quality model)Tufts University and USEPApublic domain
QUAL2K - River and Stream Water Quality ModelUSEPApublic domain
RAMAS GISApplied Biomathematicsproprietary
ReachScanUSEPApublic domain
R-UNSATUSGSpublic domain
SERAFM - Spreadsheet-based Ecological Risk Assessment for the Fate of MercuryUSEPApublic domain
SIP - Screening Imbibition Program ("model to estimate chemical exposure from drinking water alone in birds and mammals")USEPApublic domain
SPEAR - SPEcies At Risk Calculator/ TU - Toxic-Unit CalculatorUFZ Leipzigpublic domain
STIR - Screening Tool for Inhalation RiskUSEPApublic domain
SWASH - Surface WAter Scenarios HelpAlterra and Wageningen UR, The Netherlandspublic domain
TerrPLANTUSEPApublic domain
T-HERPS - Terrestrial Herpetofaunal Exposure Residue Program Simulation ("to estimate dietary exposure and risk to terrestrial-phase amphibians and reptiles from pesticide use")USEPApublic domain
Tier 1 Rice Model ("estimate surface water exposure from the use of pesticides in rice paddies")USEPAproprietary
TOXSWA - TOXic substances in Surface WAtersTOXSWA teampublic domain
TRACI - Tool for the Reduction and Assessment of Chemical and other Environmental Impacts (previously, P2P)USEPApublic domain
T-REX - Terrestrial Residue Exposure ("model to calculate the residues on avian and mammalian food items")USEPApublic domain
ubertool ("Cloud-based environmental models for evaluating pesticide risks to ecosystems")USEPApublic domain
USEtox - UNEP-SETAC (Life Cycle Initiative) ToxUSEtox development teampublic domain
WASP - Water Quality Analysis Simulation ProgramUSEPApublic domain
Watershed Plan BuilderUSEPApublic domain
Web-ICE - Web-based Interspecies Correlation EstimationUSEPApublic domain
WHATIF - Watershed Health Assessment Tools Investigating FisheriesCanaan Valley Institute and USEPApublic domain

Databases

ResourceDeveloperProprietary or Public Domain?
BCF database - Bio-concentration Factors Gold standard databaseCefic LRI and EURASpublic domain
BEACON - Beach Advisory and Closing On-line NotificationUSEPApublic domain
Bioeffects ProgramCenter for Coastal Monitoring and Assessment, National Ocean Servicepublic domain
CEE-TV - Contaminant Exposure and Effects-Terrestrial VertebratesUS Geological Surveypublic domain
ECETOC Science Areas - European Centre for Ecotoxicology and Toxicology of Chemicals Science AreasECETOCpublic domain
ECOTOX - ECOTOXicologyUSEPApublic domain
freshwaterecology.infoInstitute of Hydrobiology & Aquatic Ecosystem Management, Viennapublic domain
HERO - Health and Environmental Research Online databaseUSEPApublic domain
KNB - Knowledge Network for BiocomplexityKNB teampublic domain
microBEnet - microbiology of the Built Environment networkEisen Lab at University of California, Davis and Building Ecology Research Grouppublic domain
Mussel Watch ProgramCenter for Coastal Monitoring and Assessment, National Ocean Servicepublic domain
National Lake Fish Tissue StudyUSEPApublic domain
National Listing of Fish Advisories DatabaseUSEPApublic domain
National Status & Trends in Coastal ZonesCenter for Coastal Monitoring and Assessment, National Ocean Servicepublic domain
PPDB - Pesticide Properties DataBaseUniversity of Hertfordshirepublic domain
RIVM e-toxBase ("ecotoxicity data on both terrestrial and aquatic species")RIVM (Netherlands National Institute for Public Health and the Environment)public domain
Water Quality Standards DatabaseUSEPApublic domain
WATERS - Watershed Assessment, Tracking & Environmental Results SystemUSEPApublic domain
WCIT - Water Contaminant Information ToolUSEPAproprietary
WRDB - Water Resources DatabaseGeorgia Environmental Protection Division and USEPApublic domain