Genomic Epidemiology Papers

Comprehensive database of pathogen genomic epidemiology research from PubMed, automatically updated daily

10,684 papers from PubMed

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10,684
Papers
19
Years Covered
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Publications Over Time

Annual pathogen genomic epidemiology publication count

Methods: PubMed Search Query

Search Strategy:

Papers were retrieved from PubMed using the following query, which requires papers to have (1) genomic methods AND (2) pathogens AND (3) epidemiological context:

("Whole Genome Sequencing"[MeSH] OR "Genomics"[MeSH] OR "Bacterial Typing Techniques"[MeSH] OR "Molecular Typing"[MeSH])
AND
("Bacteria"[MeSH] OR "Viruses"[MeSH] OR "Fungi"[MeSH] OR "Parasites"[MeSH] OR "Communicable Diseases"[MeSH] OR "Bacterial Infections"[MeSH] OR "Virus Diseases"[MeSH] OR "Genome, Bacterial"[MeSH] OR "Genome, Viral"[MeSH] OR "Genome, Fungal"[MeSH])
AND
("Epidemiology"[MeSH] OR "Disease Outbreaks"[MeSH] OR "Public Health Surveillance"[MeSH] OR "Contact Tracing"[MeSH] OR "Disease Transmission, Infectious"[MeSH] OR "Infection Control"[MeSH] OR "Cross Infection"[MeSH])
NOT
("Genome-Wide Association Study"[MeSH] OR "Polymorphism, Single Nucleotide"[MeSH] OR "Genetic Predisposition to Disease"[MeSH] OR "Pharmacogenetics"[MeSH] OR "Neoplasms"[MeSH])

Date Range:

2010-present (updated daily)

Exclusions:

Human genome-wide association studies (GWAS), single nucleotide polymorphism studies, genetic predisposition studies, pharmacogenetics, and cancer genomics are excluded to focus specifically on pathogen genomic epidemiology.

To Reproduce:

Visit PubMed and paste the query above into the search box. Add date filter: AND 2010:3000[PDAT]

Note: Papers are fetched automatically via PubMed E-utilities API and cached daily. Total retrieved: 10,684 papers.

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