| ACF | Administration for Children and Families |
| AEFI | Adverse Effects Following Immunization |
| AFMIC | Armed Forces Medical Intelligence Center |
| AFHSC | Armed Forces Health Surveillance Center |
| AHA | American Hospital Association |
| AHRQ | Agency for Healthcare Research and Quality |
| AI/AN | American Indian/Alaska Native |
| APIS | Advance Passenger Information System |
| ASEAN | Association of Southeast Asian Nations |
| ASL | Assistant Secretary for Legislation |
| ASPA | Assistant Secretary for Public Affairs |
| ASPHEP | Assistant Secretary for Preparedness and Response |
| ASTHO | Association of State and Territorial Health Officials |
| ARC | American Red Cross |
| BFRSS | CDC's Behavioral Risk Factor Surveillance System |
| BTS | Border and Transportation Security (DHS) |
| CATF | Catastrophic Assessment Task Force |
| CBP | Customs and Border Protection |
| CC | Commissioned Corps |
| CDC | Centers for Disease Control and Prevention |
| CERT | Center for Education and Research in Therapeutics |
| CFR | Code of Federal Regulations |
| CMS | Centers for Medicare and Medicaid Services |
| COCA | Clinician Outreach and Communication Activity |
| COCOMS | Combatant Commanders |
| CONOP | Concept of Operations |
| COOP | Continuity of Operations Plan |
| CRA | Countermeasures and Response Administration |
| CSTE | Council of State and Territorial Epidemiologists |
| DGMQ | Division of Global Migration and Quarantine, CDC |
| DHS | Department of Homeland Security |
| DLA | Deployment Logistics Agency |
| DMAT | Disaster Medical Assistance Team |
| DMORT | Disaster Mortuary Operational Response Team |
| DOC | Department of Commerce |
| DOD | Department of Defense |
| DOI | Department of the Interior |
| DOJ | Department of Justice |
| DOL | Department of Labor |
| DOS | Department of State |
| DOT | Department of Transportation |
| DPA | Defense Protection Act |
| DPMU | Disaster Portable Mortuary Unit |
| EIP | Emerging Infections Program |
| EIS | Epidemic Intelligence Service |
| EMAC | Emergency Management Group |
| EMS | Emergency Medical System |
| EMT | Emergency Medical Technician |
| EMTALA | Emergency Medical Treatment and Labor Act |
| EOC | Emergency Operations Center |
| EPI-X | Epidemic Exchange |
| ESF | Emergency Support Function |
| EUA | Emergency Use Authorization |
| FCO | Federal Contracting Officer |
| FDA | Food and Drug Administration |
| FELTP | Field Epidemiology and Laboratory Training Program |
| FEMA | Federal Emergency Management Agency |
| FETP | Field Epidemiology Training Program |
| FFDCA | Federal Food, Drug and Cosmetic Act |
| FMS | Federal Medical Station |
| FY | Fiscal Year |
| GCC | Government Coordinating Council |
| GSA | General Services Administration |
| HAN | Health Alert Network |
| HHS | Department of Health and Human Services |
| HIPAA | Health Insurance Portability and Accountability Act |
| HPAI | Highly Pathogenic Avian Influenza |
| HRSA | Health Resources Services Administration |
| ICAO | International Civil Aviation Organization |
| ICD-9-CM | The International Classification of Diseases, Ninth Revision, Clinical Modification |
| ICU | Intensive Care Unit |
| IDE | Investigational Device Exemption |
| IHS | Indian Health Service |
| ILI | Influenza-Like Illness |
| IND | Investigational New Drug |
| INS | Immigration and Naturalization Service |
| IRB | Institutional Review Board |
| IRCT | Incident Response Coordination Team (formerly, SERT) |
| JFO | Joint Field Office |
| JIC | Joint Information Center |
| LRN | Laboratory Response Network |
| MRC | Medical Reserve Corps |
| NACCHO | National Association of County and City Health Officials |
| NASEMSO | National Association of State EMS Officials |
| NASPHV | National Association of State Public Health Veterinarians |
| NBIS | National Biosurveillance Integration System |
| NDMS | National Disaster Medical System |
| NEMSIS | National EMS Information System |
| NHTSA | National Highway Traffic Safety Administration |
| NIH | National Institutes of Health |
| NISS | National Influenza Surveillance System |
| NORTHCOM | U.S. Northern Command |
| NREVSS | National Respiratory and Enteric Virus Surveillance System |
| NRCC | National Response Coordination Center |
| NRF | National Response Framework |
| NSC | National Security Council |
| NVPO | National Vaccine Program Office |
| NVSN | New Vaccine Surveillance Network |
| OEM | Office of Emergency Management |
| OGC | Office of General Counsel (HHS) |
| OGHA | Office of Global Health Affairs (HHS) |
| OMSPH | Office of Medicine, Science and Public Health (HHS) |
| OIE | Office International des Epizooties |
| ASPR | Office of the Assistant Secretary for Preparedness and Response (HHS) |
| OPHS | Office of the Public Health Service |
| OS | Office of the Secretary (HHS) |
| OSG | Office of the Surgeon General |
| OSHA | Occupational Safety and Health Administration |
| PFO | Principal Federal Officer(s) |
| PHS | Public Health Service |
| PHS CC | Public Health Service Commissioned Corps |
| PHSS | Public Health Secondary Site |
| PI | Pandemic Influenza |
| POD | Point of Dispensing (SNS) |
| POE | Ports of Entry |
| POE | Point of Embarkation |
| PPE | Personal Protective Equipment |
| PSMA | Pre-Scripted Mission Assignment |
| RDF | Rapid Deployment Force |
| REC | Regional Emergency Coordinator |
| RRCC | Regional Response Coordination Center |
| RT-PCR | Reverse Transcriptase-Polymerase Chain Reaction |
| SAMHSA | Substance Abuse and Mental Health Services Administration |
| SARS | Severe Acute Respiratory Syndrome |
| SCHIP | State Children’s Health Insurance Program |
| SLTT | State, Local, Territorial and Tribal |
| SME | Subject Matter Expert |
| SMO | Senior Medical/Management Official |
| SNS | Strategic National Stockpile |
| SOC | Secretary’s Operation Center (HHS) |
| SOP | Standard Operating Procedure |
| SPP | North American Security and Prosperity Partnership |
| SSA | State Survey Agency |
| USAID | United States Agency for International Development |
| USC | United States Citizen |
| USCG | United States Coast Guard |
| USDA | United States Department of Agriculture |
| US-CCPERID | US-China Collaborative Program on Emerging and Re-Emerging Infectious Diseases |
| USERRA | Uniformed Services Employment and Reemployment Rights Act |
| USG | United States Government |
| USDA | United States Department of Agriculture |
| VA | Department of Veterans Administration |
| WHO | World Health Organization |