Exposure/Risk Analysis

 
Microenvironmental/LCA Modeling

Microenvironmental and life cycle analysis (LCA) modeling

Computational Analysis Tools

ResourceDeveloper
AMEM - ADL Migration Estimation ModelUSEPA
BenMAP ("estimate the health impacts and economic benefits [...] when populations experience changes in air quality")USEPA
CalTOXCalifornia DTSC
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")RIVM
CONTAMNIST
COS.SIM ("Agent Based Traffic MicroSimulation")COS.SIM development team
Creme - RIFM Aggregate Exposure Model for Fragrance MaterialsCreme Global and RIFM
DEEM-FCID/ Calendex - Dietary Exposure Evaluation Model-Food Commodity Intake Database/ CalendexUSEPA
DMR Pollutant Loading Tool - Discharge Monitoring Report Pollutant Loading ToolUSEPA
EMI - Exposure Model for IndividualsUSEPA
EPANET ("Models the Hydraulic and Water Quality Behavior of Water Distribution Piping Systems")USEPA
European AirBase reporting stationsEuropean Environment Agency
EUSES - European Union System for the Evaluation of SubstancesEuropean Commission, JRC, IHCP
FACET - Flavourings, Additives and food Contact materials Exposure TaskCreme Global and collaborators
GLEAMviz - Global Epidemic and Mobility modelNortheastern University, ISI Foundation and Indiana University
iSTREEMAmerican Cleaning Institute
i-SVOC ("application for dynamic modeling of the emissions, transport, sorption, and distribution of semi-volatile organic compounds (SVOCs) in the indoor environment")USEPA
MCCEM - Multi-Chamber Concentration and Exposure ModelVersar Inc. and USEPA
OpenFOAMOpenCFD Ltd, ESI Group
P2P - Pollution Prevention Progress (see TRACI)USEPA
PhoenicsCHAM
PIRAT - Pesticide Inert Risk Assessment ToolUSEPA
PRoTEGE - Prioritization/Ranking of Toxic Exposures with GIS ExtensionComputational Chemodynamics Laboratory
RaidarCEMC, Canada
SWIMODEL - Swimmer Exposure Assessment ModelUSEPA
SystemsRealityUSEPA
TRACI - Tool for the Reduction and Assessment of Chemical and other Environmental Impacts (previously, P2P)USEPA
USEtox - UNEP-SETAC (Life Cycle Initiative) ToxUSEtox development team
VegScape - Vegetation Condition ExplorerUSDA National Agricultural Statistics Service

Information Portals and Databases

ResourceDeveloper
AHS - American Housing SurveyUS Census Bureau
AllergomeAllergome platform development team
American Cleaning Institute Cleaning Product Ingredient InventoryAmerican Cleaning Institute
ATUS - American Time Use SurveyU.S. Bureau of Labor Statistics
BRFSS - Behavioral Risk Factor Surveillance SystemCDC
California Safe Cosmetics Program Product DatabaseCalifornia Safe Cosmetics Program, California Department of Public Health
caNanoLab - cancer Nanotechnology LaboratoryNCI (National Cancer Institute), NIH
CBECS - Commercial Buildings Energy Consumption SurveyU.S. Energy Information Administration
CDC WONDER - Wide-ranging Online Data for Epidemiologic ResearchCDC
Census of AgricultureUSDA NASS
CHAD - Consolidated Human Activity DatabaseUSEPA
ChemViewUSEPA
Child-Specific Exposure Factors HandbookUSEPA
Consumer Expenditure SurveyU.S. Bureau of Labor Statistics
Consumer Products Inventory ("inventory of nanotechnology-based consumer products introduced on the market")The Project on Emerging Nanotechnologies
CPCat - Chemical and Product CategoriesUSEPA
CPID - Consumer Product Information DatabaseCDC and DeLima Associates, Virginia, USA
CSFII - Continuing Survey of Food Intakes by IndividualsUSDA
DSID - Dietary Supplement Ingredient DatabaseUSDA Nutrient Data Laboratory and Office of Dietary Supplements, NIH
DWS - Drinking Water StandardsUSEPA
EAFUS - Everything Added to Food in the United StatesUSFDA
ECETOC Science Areas - European Centre for Ecotoxicology and Toxicology of Chemicals Science AreasECETOC
EPA-Expo-Box - EPA’s EXPOsure toolBOX ("A Toolbox for Exposure Assessors")USEPA
Esri Business AnalystEsri
ExpoCastDB - Exposure Forecaster DatabaseUSEPA
FACET - Flavourings, Additives and food Contact materials Exposure TaskCreme Global and collaborators
Factual ("Global Products with Ingredients and Nutrition")Factual Inc.
GNPD - Mintel Global New Products DatabaseMintel Group Ltd.
GoodGuide ("source of information on health, environmental, and social impacts of consumer products")GoodGuide team
HEDS - Human Exposure Database SystemUSEPA
HPD - Household Products DatabaseNational Library of Medicine
HPVIS - High Production Volume Information SystemUSEPA
iemHUB ("online community resource for those involved in the development, evaluation, and application of environmental models")iemHUB team
Information Collection Rule Drinking Water Microbial And Disinfection Byproduct InformationUSEPA
InterNanoNational Nanomanufacturing Network
Nanomaterial RegistryRTI International
Nanowerk Nanotechnology Products and ApplicationsNanowerk
National Nutrient Database for Standard ReferenceUSDA
NCOD - National Contaminant Occurrence DatabaseUSEPA
NHANES - National Health and Nutrition Examination SurveyCDC
NHEXAS - National Human Exposure Assessment Survey (project completed)USEPA
NOES - National Occupational Exposure SurveyCDC - NIOSH
NPDWR - National Primary Drinking Water RegulationsUSEPA
NWIS - National Water Information SystemUS Geological Survey
PDP - Pesticide Data ProgramUSDA ARS
RIOPA - Relationships of Indoor, Outdoor, and Personal AirEOHSI and Health Effects Institute
SDWIS - Safe Drinking Water Information SystemUSEPA
Skin Deep DatabaseEnvironmental Working Group
SocDynamics.org (Modeling Social Dynamics)SocDynamics.org development team
SPARTAN - Surface PARTiculate mAtter NetworkSPARTAN Network team
TDS - Total Diet StudyUSFDA
TEAM - Total Exposure Assessment Methodology StudyUSEPA
The NanodatabaseThe Ecological Council, DTU Environment and Danish Consumer Council, Denmark
United Nations Statistical YearbookUnited Nations
US Census SurveyUS Census Bureau
WATERS - Watershed Assessment, Tracking & Environmental Results SystemUSEPA
WWEIA - What We Eat In America, NHANESUSDA ARS and CDC
Socioeconomic/LSB Modeling

Socioeconomic and Life Stage Behavior (LSB) modeling

Computational Analysis Tools

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

Information Portals and Databases

ResourceDeveloper
AHS - American Housing SurveyUS Census Bureau
American Communities ProjectAmerican Communities Project, American University, Washington, DC
ATUS - American Time Use SurveyU.S. Bureau of Labor Statistics
CBECS - Commercial Buildings Energy Consumption SurveyU.S. Energy Information Administration
CGD - Customized Geographic DatabaseBiota of North America Program (BONAP)
CHAD - Consolidated Human Activity DatabaseUSEPA
CHSI - Community Health Status IndicatorsCDC
Consumer Expenditure SurveyU.S. Bureau of Labor Statistics
CPS - Current Population SurveyUS Census Bureau
CSFII - Continuing Survey of Food Intakes by IndividualsUSDA
DIVA-GIS (GIS data by country)DIVA-GIS development team
Esri Business AnalystEsri
Food Environment AtlasUSDA
GeoLytics Demographics Estimates/ ProjectionsGeoLytics, Inc.
Health Indicators WarehouseNational Center for Health Statistics
Index Mundi - MapsIndexMundi development team
Italian demographics dataISTAT
MapUSA - Human mapping projectJohn Logan
NHAPS - The National Human Activity Pattern SurveyUSEPA
SocDynamics.org (Modeling Social Dynamics)SocDynamics.org development team
Statistical AbstractUS Census Bureau
TIGER - Topologically Integrated Geographic Encoding and ReferencingUS Census Bureau
United Nations Statistical YearbookUnited Nations
US Census Population DatabaseUS Census Bureau
US Census SurveyUS Census Bureau
US Economic CensusUS Census Bureau
US Health Map (Interactive Health Trends Map of US at County level for both Genders)Institute for Health Metrics and Evaluation (IHME)
WHO Global Health Observatory Map GalleryWorld Health Organization (WHO)
World Bank Open Data ("free and open access to data about development in countries around the globe")The World Bank Group
WWEIA - What We Eat In America, NHANESUSDA ARS and CDC
Cumulative/Aggregate Exposures

Cumulative and aggregate exposure modeling for individuals and populations

Computational Analysis Tools

ResourceDeveloper
CARES - Cumulative and Aggregate Risk Evaluation SystemCropLife America, ILSI Research Foundation
C-FERST - Community-Focused Exposure and Risk Screening ToolUSEPA
ChemSTEER - Chemical Screening Tool For Exposures & Environmental ReleasesUSEPA
CropScape ("crop-specific land cover data layer created annually for the continental United States")USDA National Agricultural Statistics Service
DEEM-FCID/ Calendex - Dietary Exposure Evaluation Model-Food Commodity Intake Database/ CalendexUSEPA
DEPM - Dietary Exposure Potential ModelUSEPA
DMR Pollutant Loading Tool - Discharge Monitoring Report Pollutant Loading ToolUSEPA
E-FAST - Exposure and Fate Assessment Screening ToolUSEPA
EMI - Exposure Model for IndividualsUSEPA
European AirBase reporting stationsEuropean Environment Agency
FRAMES-3MRA - Multimedia, Multi-pathway, Multi-receptor Exposure and Risk AssessmentUSEPA
HAPEM - Hazardous Air Pollutant Exposure ModelUSEPA
LifelineLifeLine Group
MENTOR-2E - Modeling ENvironment for TOtal Risk studies for Emergency Event applicationsComputational Chemodynamics Laboratory
MENTOR-4M - Modeling ENvironment for TOtal Risk studies for Multiple co-occurring contaminants and Multimedia, Multipathway, Multiroute exposuresComputational Chemodynamics Laboratory
MEPAS - Multimedia Environmental Pollutant Assessment SystemPacific Northwest National Laboratory
PIRAT - Pesticide Inert Risk Assessment ToolUSEPA
RESRAD - RESidual RADioactiveArgonne National Laboratory
SHEDS Multimedia - Stochastic Human Exposure and Dose Simulation modelUSEPA
SHEDS-AIRTOXICS - Stochastic Human Exposure and Dose Simulation for Air ToxicsUSEPA
SHEDS-Pesticides - Stochastic Human Exposure and Dose Simulation Model for PesticidesUSEPA
SHEDS-PM - Stochastic Human Exposure and Dose Simulation for Particulate MatterUSEPA
SHEDS-WOOD - Stochastic Human Exposure and Dose Simulation Model for Wood PreservativesUSEPA
VegScape - Vegetation Condition ExplorerUSDA National Agricultural Statistics Service

Information Portals and Databases

ResourceDeveloper
AirBase ("European air quality database")European Environment Agency and European Topic Centre on Air Pollution and Climate Change and Mitigation (ETC/ACM)
ATUS - American Time Use SurveyU.S. Bureau of Labor Statistics
California Safe Cosmetics Program Product DatabaseCalifornia Safe Cosmetics Program, California Department of Public Health
CHAD - Consolidated Human Activity DatabaseUSEPA
Child-Specific Exposure Factors HandbookUSEPA
Cosmeticsinfo.orgPersonal Care Products Council
CPID - Consumer Product Information DatabaseCDC and DeLima Associates, Virginia, USA
EPA-Expo-Box - EPA’s EXPOsure toolBOX ("A Toolbox for Exposure Assessors")USEPA
ExpoCastDB - Exposure Forecaster DatabaseUSEPA
EXPOLIS DatabaseMatti Jantunen, KTL Air Hygiene Laboratory, Finland
Exposure Factors HandbookUSEPA
Factual ("Global Products with Ingredients and Nutrition")Factual Inc.
GerES - German Environmental SurveyThe Federal Environment Agency, Germany
HEDS - Human Exposure Database SystemUSEPA
iemHUB ("online community resource for those involved in the development, evaluation, and application of environmental models")iemHUB team
InterNanoNational Nanomanufacturing Network
NHANES - National Health and Nutrition Examination SurveyCDC
NHEXAS - National Human Exposure Assessment Survey (project completed)USEPA
RIOPA - Relationships of Indoor, Outdoor, and Personal AirEOHSI and Health Effects Institute
SPARTAN - Surface PARTiculate mAtter NetworkSPARTAN Network team
TEACH - Toxicity and Exposure Assessment for Children's HealthUSEPA
United Nations Statistical YearbookUnited Nations
Biomarkers

Computational Analysis Tools

ResourceDeveloper
Affymetrix Expression ConsoleAffymetrix
Affymetrix GeneChip Sequence Analysis SoftwareAffymetrix
Affymetrix Transcriptome Analysis ConsoleAffymetrix
BEs - Biomonitoring EquivalentsSummit Toxicology, LLP
BiQ Analyzer ("software tool for DNA methylation analysis")Max Planck Institute for Informatics, Germany
Bismark (tool to map bisulfite converted sequence reads and determine cytosine methylation states)Babraham Bioinformatics
CMARRT (A tool for the analysis of ChIP-chip data from tiling arrays by incorporating the correlation structure)Keles Research Group, University of Wisconsin
CNVFinder - Copy Number Variant FinderWellcome Trust Sanger Institute, UK
CompassBruker Daltonics
Compass OpenAccessBruker Daltonics
CSEM - Multi-read Allocation for ChIP-seqKeles Research Group, University of Wisconsin
Cufflinks - Transcript assembly, differential expression and regulation for RNA-Seq samplesUC Berkeley, JHU, and Caltech
CummeRbund - To analyze Cufflinks RNA-Seq outputMIT and Harvard
DBChIP - program to detect differentially bound sharp binding sites across multiple conditionsKeles Research Group, University of Wisconsin
Disease/ Phenotype web-PAGE ("disease based gene set analysis of microarray gene expression")Gene Expression and Genomics Unit, NIA, NIH
EIGENSOFT ("combines functionality from our population genetics methods [...] and our EIGENSTRAT stratification correction method")EIGENSOFT development team, Harvard School of Public Health
EpiGRAPH - for advanced (epi-) genome analysis and predictionEpiGRAPH development team
flexImagingBruker Daltonics
FunDO ("Exploring Genes Using Functional Disease Ontology Annotations")Northwestern University Biomedical Informatics Center
GeneMANIA - "predict the function of [...] genes and gene sets"Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Canada
GeneSpringAgilent Technologies
Genotyping ConsoleAffymetrix Inc
HDMFinder ("Methylation prediction software")Zhang Lab, Cold Spring Harbor Laboratory, NY
Ingenuity Variant AnalysisQiagen
IPA - Ingenuity Pathway AnalysisQiagen N.V.
jMOSAiCS - Joint Analysis of Multiple ChIP-seq DatasetsKeles Research Group, University of Wisconsin
MarkerViewAB Sciex
MascotMatrix Science
MENTOR - Modeling ENvironment for TOtal Risk studiesComputational Chemodynamics Laboratory
MetaboliteToolsBruker Daltonics
Methylator ("An SVM Based Method for DNA Methylation Prediction")Methylator Development Team
MIDAS - Multi Instance Data Acquisition SystemScience and Technology Facilities Council, UK
MOABS - MOdel based Analysis of Bisulfite Sequencing dataDeqiang Sun, Baylor College of Medicine
Monocle - toolkit for analyzing single-cell gene expression experimentsCole Trapnell
MOSAiCS - MOdel-based one and two Sample Analysis and Inference for ChIP-Seq DataKeles Research Group, University of Wisconsin
mzMINEMZmine team (open-source)
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 Wisconsin
OmicsOffice for MicroarraysIntegromics
PLINK ("Whole genome association analysis toolset")PLINK development team, CHGR - Massachusetts General Hospital, Boston, MA
PolyBayes ("automated analysis of single-nucleotide polymorphism (SNP) discovery in redundant DNA sequences")Washington University Genome Sequencing Center
Polyphred (single nucleotide substitution identification)University of Washington (Brent Ewing, Phil Green, David Gordon et al.)
ProfileAnalysisBruker Daltonics
ProteinScapeBruker Daltonics
ProteoIQ ("qualitative and quantitative suite for proteomics")Premier Biosoft
SCiLS ("Statistical analysis of MALDI imaging data")SCiLS GmbH and Bruker Daltonics
SICER ("clustering approach for identification of enriched domains from histone modification ChIP-Seq data")W. Peng lab, George Washington University
SMART-BS-Seq - Specific Methylation Analysis and Report Tool for BS-Seq dataPython Software Foundation
SNAP - Screening for Non-Acceptable PolymorphismsRost Lab, Columbia University, New York
SNAP - SNP Annotation and Proxy SearchSNAP Development Team
SNP-o-matic (analysis of Solexa reads and comparison with reference)Sanger Institute
SNPTrackUSFDA
SUCcESS (Integration of quantitative information from ChIP-chip experiments into motif finding)Keles Research Group, University of Wisconsin
TileHGMM (Mixture modeling for genome-wide localization of transcription factors)Keles Research Group, University of Wisconsin
TopSpin (NMR data analysis and acquisition and processing of NMR spectra)Bruker Corporation
Trinotate ("Transcriptome Functional Annotation and Analysis")Trinotate development team
Tute ("web application [...] in the cloud and [...] analyze and annotate entire human genomes")Tute Genomics
X-TileYale University

Information Portals and Databases

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

Modeling human health risks

Computational Analysis Tools

ResourceDeveloper
ALOHA - Areal Locations of Hazardous AtmospheresNOAA
ALOHA (Areal Locations of Hazardous Atmospheres) ArcMap Import ToolsUS NOAA Office of Response and Restoration
BenMAP ("estimate the health impacts and economic benefits [...] when populations experience changes in air quality")USEPA
BMDS - Benchmark Dose SoftwareUSEPA
CARBDOSEUSEPA
Cefic LRI Toolbox - Long-range Research Initiative ToolboxCefic
CEPST - Chemical Exposure Priority Setting ToolThe LifeLine Group
C-FERST - Community-Focused Exposure and Risk Screening ToolUSEPA
DALY Calculator - Disability-Adjusted Life Year CalculatorDALY Calculator development team
Disease/ Phenotype web-PAGE ("disease based gene set analysis of microarray gene expression")Gene Expression and Genomics Unit, NIA, NIH
FARE MicrobialExponent, Inc. and USFDA
FDA-iRISKUSFDA
MFFRST - Metal Finishing Facility Risk Screening ToolUSEPA
STEM - Spatiotemporal Epidemiological ModelerEclipse
UR3M - Unified Radon Relative Risk ModelUSEPA

Information Portals and Databases

ResourceDeveloper
BCF database - Bio-concentration Factors Gold standard databaseCefic LRI and EURAS
Comprehensive Cancer InformationNCI (National Cancer Institute), NIH
CPDB - Carcinogenic Potency DatabaseCPDB development team
ECETOC Science Areas - European Centre for Ecotoxicology and Toxicology of Chemicals Science AreasECETOC
EPA-Expo-Box - EPA’s EXPOsure toolBOX ("A Toolbox for Exposure Assessors")USEPA
EuPathDB - Eukaryotic Pathogen Database ResourcesEuPathDB Project Team
ExpoFacts - European Exposure Factors SourcebookEuropean Commission, JRC, IHCP
Exposure Factors HandbookUSEPA
GAC - Genetic Alterations in CancerNIEHS
GeMDBJ - Genome Medicine Database of JapanSGMGP (The Study Groups of Millennium Genome Project for Alzheimer's disease, Cancer, Diabetes Mellitus, Hypertension, Asthma and Pharmacogenetics)
HEDS - Human Exposure Database SystemUSEPA
HERO - Health and Environmental Research Online databaseUSEPA
IARC Monographs- ClassificationsIARC, WHO
ICRP - International Commission on Radiological Protection - Database of Dose CoefficientsICRP
IRIS - Integrated Risk Information SystemUSEPA
NATA - National Air Toxics AssessmentsUSEPA
National Toxicology Program Technical ReportsNIEHS
NCTRlcdb - NCTR Liver Cancer DatabaseUSFDA
PatientsLikeMe (network of patients sharing experiences on diseases)PatientsLikeMe team
ToxGuides™ATSDR, CDC
Toxic Substances PortalATSDR, CDC
Unregulated Contaminant Monitoring dataUSEPA
US Census Population DatabaseUS Census Bureau
US Census SurveyUS Census Bureau
Ecological Risks

Modeling ecological risks from chemicals

Computational Analysis Tools

ResourceDeveloper
2MOD ("estimate the relative likelihoods of a model of immigration-drift equilibrium versus drift since a certain time")2MOD team (M. Beaumont)
ACE - Acute-to-Chronic Estimation with Time-Concentration-Effect ModelsUSEPA
AGDISP - AGricultural DISPersalUSDA Forest Service
AgDRIFTUSEPA, USDA Forest Service and Spray Drift Task Force
AQUATOX ("simulation model for aquatic systems")USEPA and R. Park, Ecomodeling
AquiferWin32ESI Ltd.
ASTER - Assessment Tools for the Evaluation of RiskUSEPA
ATTILA - Analytical Tools Interface for Landscape AssessmentsUSEPA
BASS - Bioaccumulation and Aquatic System SimulatorUSEPA
BIOPLUME III ("simulating the natural attenuation of organic contaminants in groundwater")US Air Force (Groundwater Services, Inc.) and the USEPA
BLM - Biotic Ligand ModelHydroQual
bsim-bccs ("Models the stochastic interactions of bacteria and particles in a fluid based environment")bsim-bccs development team
CalTOXCalifornia DTSC
CASCADEAlterra and Plant Research International
CE-QUAL-ICMU.S. Army Corps of Engineers
CE-QUAL-W2U.S. Army Corps of Engineers and Portland State University
ChemStat ("statistical analysis of ground water monitoring data at RCRA facilities")Starpoint Software Inc.
COMBO - COral Mortality and Bleaching OutputCOMBO Team
CormasCormas development team, Cirad
DEBToxUniversity of Amsterdam
Defra Risk AssessmentDefra team and Department for Environment, Food & Rural Affairs
DFLOWUSEPA
DMR Pollutant Loading Tool - Discharge Monitoring Report Pollutant Loading ToolUSEPA
DROPLETAlterra and Wageningen UR, The Netherlands
DUST ("model to calculate the dermal uptake of pesticides by birds and mammals")USEPA
ECOSAR - Ecological Structure Activity RelationshipsSyracuse Research Corporation and USEPA
E-FAST - Exposure and Fate Assessment Screening ToolUSEPA
EMSOFT - Exposure Model for Soil-Organic Fate and TransportRTP
EwE - Ecopath with EcosimInternational Center for Living Aquatic Resources Management, Philippines
EXAMS - Exposure Analysis Modeling SystemUSEPA
FGETS - Food and Gill Exchange of Toxic SubstancesUSEPA
FIRST - FQPA Index Reservoir Screening ToolUSEPA
FOCUS - FOrum for Co-ordination of pesticide fate models and their USeFOCUS team, EU Commission
FRAMES-3MRA - Multimedia, Multi-pathway, Multi-receptor Exposure and Risk AssessmentUSEPA
GARR - Gross Alpha Radium RegulationUSEPA
GBPCALC - Gross Beta Photon CalculatorUSEPA
GENEEC2 - Generic Estimated Environmental ConcentrationUSEPA
Groundwater Vistas ("3D groundwater flow and contaminant transport modeling, calibration and optimization using the MODFLOW suite of codes")Groundwater Vistas development team
GUTS - General Unified Threshold model for SurvivalGUTS team
HAIR - HArmonized environmental Indicators for pesticide RiskAlterra and Wageningen UR, The Netherlands
HexSim (previously PATCH)USEPA
IONEX - Ion ExchangeUSEPA
IsoConcUSEPA
IsoErrorUSEPA
IsoSourceUSEPA
iSTREEMAmerican Cleaning Institute
KABAM - Kow (based) Aquatic BioAccumulation ModelUSEPA
MASTEP - Metapopulation model for Assessing Spatial and Temporal Effects of PesticidesAlterra and Wageningen UR, The Netherlands
Mercury MapsUSEPA
NWPCAM - Nation Water Pollution Control Assessment ModelUSEPA
P2P - Pollution Prevention Progress (see TRACI)USEPA
PATCH - Program to Assist in Tracking Critical Habitat (see HexSim)USEPA
PEARL - Pesticide Emission Assessment at Regional and Local scales, GeoPEARLAlterra, PBL and RIVM
PERPEST - Predicts the Ecological Risks of PESTicides in freshwater ecosystemsAlterra and Wageningen UR, The Netherlands
PFAM - Pesticides in Flooded Application ModelUSEPA
PRIMET - Pesticides RIsks in the tropics to Man, Environment and TradeAlterra and Wageningen UR, The Netherlands
PRZM/EXAMS ShellUSEPA
PRZM-GWUSEPA
QUAL2E (Enhanced Stream Water Quality model)Tufts University and USEPA
QUAL2K - River and Stream Water Quality ModelUSEPA
RAMAS GISApplied Biomathematics
ReachScanUSEPA
R-UNSATUSGS
SERAFM - Spreadsheet-based Ecological Risk Assessment for the Fate of MercuryUSEPA
SIP - Screening Imbibition Program ("model to estimate chemical exposure from drinking water alone in birds and mammals")USEPA
SPEAR - SPEcies At Risk Calculator/ TU - Toxic-Unit CalculatorUFZ Leipzig
STIR - Screening Tool for Inhalation RiskUSEPA
SWASH - Surface WAter Scenarios HelpAlterra and Wageningen UR, The Netherlands
TerrPLANTUSEPA
T-HERPS - Terrestrial Herpetofaunal Exposure Residue Program Simulation ("to estimate dietary exposure and risk to terrestrial-phase amphibians and reptiles from pesticide use")USEPA
Tier 1 Rice Model ("estimate surface water exposure from the use of pesticides in rice paddies")USEPA
TOXSWA - TOXic substances in Surface WAtersTOXSWA team
TRACI - Tool for the Reduction and Assessment of Chemical and other Environmental Impacts (previously, P2P)USEPA
T-REX - Terrestrial Residue Exposure ("model to calculate the residues on avian and mammalian food items")USEPA
ubertool ("Cloud-based environmental models for evaluating pesticide risks to ecosystems")USEPA
USEtox - UNEP-SETAC (Life Cycle Initiative) ToxUSEtox development team
WASP - Water Quality Analysis Simulation ProgramUSEPA
Watershed Plan BuilderUSEPA
Web-ICE - Web-based Interspecies Correlation EstimationUSEPA
WHATIF - Watershed Health Assessment Tools Investigating FisheriesCanaan Valley Institute and USEPA

Information Portals and Databases

ResourceDeveloper
BCF database - Bio-concentration Factors Gold standard databaseCefic LRI and EURAS
BEACON - Beach Advisory and Closing On-line NotificationUSEPA
Bioeffects ProgramCenter for Coastal Monitoring and Assessment, National Ocean Service
CEE-TV - Contaminant Exposure and Effects-Terrestrial VertebratesUS Geological Survey
ECETOC Science Areas - European Centre for Ecotoxicology and Toxicology of Chemicals Science AreasECETOC
ECOTOX - ECOTOXicologyUSEPA
freshwaterecology.infoInstitute of Hydrobiology & Aquatic Ecosystem Management, Vienna
HERO - Health and Environmental Research Online databaseUSEPA
KNB - Knowledge Network for BiocomplexityKNB team
microBEnet - microbiology of the Built Environment networkEisen Lab at University of California, Davis and Building Ecology Research Group
Mussel Watch ProgramCenter for Coastal Monitoring and Assessment, National Ocean Service
National Lake Fish Tissue StudyUSEPA
National Listing of Fish Advisories DatabaseUSEPA
National Status & Trends in Coastal ZonesCenter for Coastal Monitoring and Assessment, National Ocean Service
PPDB - Pesticide Properties DataBaseUniversity of Hertfordshire
RIVM e-toxBase ("ecotoxicity data on both terrestrial and aquatic species")RIVM (Netherlands National Institute for Public Health and the Environment)
Water Quality Standards DatabaseUSEPA
WATERS - Watershed Assessment, Tracking & Environmental Results SystemUSEPA
WCIT - Water Contaminant Information ToolUSEPA
WRDB - Water Resources DatabaseGeorgia Environmental Protection Division and USEPA