| 36730050 | Spike Gene Target Amplification in a Diagnostic Assay as a Marker for Public Health Monitoring of Emerging SARS-CoV-2 Variants - United States, November 2021-January 2023. | MMWR Morb Mortal Wkly Rep | 2023 |
| 35686436 | Early Detection of Severe Acute Respiratory Syndrome Coronavirus 2 Variants Using Traveler-based Genomic Surveillance at 4 US Airports, September 2021-January 2022. | Clin Infect Dis | 2023 |
| 37319011 | Genomic Surveillance for SARS-CoV-2 Variants: Circulation of Omicron Lineages - United States, January 2022-May 2023. | MMWR Morb Mortal Wkly Rep | 2023 |
| 35169842 | Future-proofing and maximizing the utility of metadata: The PHA4GE SARS-CoV-2 contextual data specification package. | Gigascience | 2022 |
| 35411350 | Wastewater sequencing uncovers early, cryptic SARS-CoV-2 variant transmission. | medRxiv | 2022 |
| 35798029 | Wastewater sequencing reveals early cryptic SARS-CoV-2 variant transmission. | Nature | 2022 |
| 35143464 | Genomic Surveillance for SARS-CoV-2 Variants: Predominance of the Delta (B.1.617.2) and Omicron (B.1.1.529) Variants - United States, June 2021-January 2022. | MMWR Morb Mortal Wkly Rep | 2022 |
| 33476315 | Emergence of SARS-CoV-2 B.1.1.7 Lineage - United States, December 29, 2020-January 12, 2021. | MMWR Morb Mortal Wkly Rep | 2021 |
| 33649511 | Want to track pandemic variants faster? Fix the bioinformatics bottleneck. | Nature | 2021 |
| 33891875 | Early introductions and transmission of SARS-CoV-2 variant B.1.1.7 in the United States. | Cell | 2021 |
| 33861950 | Emergence and rapid transmission of SARS-CoV-2 B.1.1.7 in the United States. | Cell | 2021 |
| 34805437 | SARS-CoV-2 Genomic Surveillance Reveals Little Spread From a Large University Campus to the Surrounding Community. | Open Forum Infect Dis | 2021 |
| 34138695 | Transmission Dynamics of Severe Acute Respiratory Syndrome Coronavirus 2 in High-Density Settings, Minnesota, USA, March-June 2020. | Emerg Infect Dis | 2021 |
| 34111060 | Genomic Surveillance for SARS-CoV-2 Variants Circulating in the United States, December 2020-May 2021. | MMWR Morb Mortal Wkly Rep | 2021 |
| 34108654 | SARS-CoV-2 Variants of Interest and Concern naming scheme conducive for global discourse. | Nat Microbiol | 2021 |
| 32513865 | Genomic surveillance reveals multiple introductions of SARS-CoV-2 into Northern California. | Science | 2020 |
| 32768390 | STROBE-metagenomics: a STROBE extension statement to guide the reporting of metagenomics studies. | Lancet Infect Dis | 2020 |
| 32528156 | Ten recommendations for supporting open pathogen genomic analysis in public health. | Nat Med | 2020 |
| 30763433 | Next-Generation Sequencing of Infectious Pathogens. | JAMA | 2019 |
| 31881145 | Pathogen Genomics in Public Health. | N Engl J Med | 2019 |
| 30737915 | Platforms and Analytical Tools Used in Nucleic Acid Sequence-Based Microbial Genotyping Procedures. | Microbiol Spectr | 2019 |
| 28031438 | Integrating Advanced Molecular Technologies into Public Health. | J Clin Microbiol | 2017 |
| 28362935 | Evolution and Transmission of Carbapenem-Resistant Klebsiella pneumoniae Expressing the blaOXA-232 Gene During an Institutional Outbreak Associated With Endoscopic Retrograde Cholangiopancreatography. | Clin Infect Dis | 2017 |
| 25679978 | Development and validation of an internationally-standardized, high-resolution capillary gel-based electrophoresis PCR-ribotyping protocol for Clostridium difficile. | PLoS One | 2015 |
| 26132731 | Canonical Single Nucleotide Polymorphisms (SNPs) for High-Resolution Subtyping of Shiga-Toxin Producing Escherichia coli (STEC) O157:H7. | PLoS One | 2015 |
| 26154004 | Good laboratory practice for clinical next-generation sequencing informatics pipelines. | Nat Biotechnol | 2015 |
| 26196384 | Genomic Analysis of the Emergence and Rapid Global Dissemination of the Clonal Group 258 Klebsiella pneumoniae Pandemic. | PLoS One | 2015 |
| 25887617 | Chlamydia psittaci comparative genomics reveals intraspecies variations in the putative outer membrane and type III secretion system genes. | Microbiology (Reading) | 2015 |
| 24631223 | Strengthening the Reporting of Molecular Epidemiology for Infectious Diseases (STROME-ID): an extension of the STROBE statement. | Lancet Infect Dis | 2014 |
| 25291580 | New Delhi metallo-β-lactamase-producing carbapenem-resistant Escherichia coli associated with exposure to duodenoscopes. | JAMA | 2014 |
| 25103754 | Genome Sequences of 228 Shiga Toxin-Producing Escherichia coli Isolates and 12 Isolates Representing Other Diarrheagenic E. coli Pathotypes. | Genome Announc | 2014 |
| 24951807 | Whole-genome analysis of Exserohilum rostratum from an outbreak of fungal meningitis and other infections. | J Clin Microbiol | 2014 |
| 24602944 | Carbapenem-resistant Klebsiella pneumoniae producing New Delhi metallo-β-lactamase at an acute care hospital, Colorado, 2012. | Infect Control Hosp Epidemiol | 2014 |
| 23175261 | Development and evaluation of a novel, semiautomated Clostridium difficile typing platform. | J Clin Microbiol | 2013 |
| 23917910 | Prevalence and risk factors associated with vancomycin-resistant Staphylococcus aureus precursor organism colonization among patients with chronic lower-extremity wounds in Southeastern Michigan. | Infect Control Hosp Epidemiol | 2013 |
| 23931842 | Bacterial strain typing. | Clin Lab Med | 2013 |
| 23704182 | Genome Sequence of Salmonella enterica Serotype Tennessee Strain CDC07-0191, Implicated in the 2006-2007 Multistate Food-Borne Outbreak Linked to Peanut Butter in the United States. | Genome Announc | 2013 |
| 23780507 | Epidemiology of community-associated Clostridium difficile infection, 2009 through 2011. | JAMA Intern Med | 2013 |
| 23516195 | Draft genome sequences of Bordetella holmesii strains from blood (F627) and nasopharynx (H558). | Genome Announc | 2013 |
| 22377231 | Community-associated Clostridium difficile infections, Monroe County, New York, USA. | Emerg Infect Dis | 2012 |
| 22986214 | Development of a consensus method for culture of Clostridium difficile from meat and its use in a survey of U.S. retail meats. | Food Microbiol | 2012 |
| 19183143 | Proton pump inhibitors increase significantly the risk of Clostridium difficile infection in a low-endemicity, non-outbreak hospital setting. | Aliment Pharmacol Ther | 2009 |
| 18573937 | Clostridium difficile infections in a Canadian tertiary care hospital before and during a regional epidemic associated with the BI/NAP1/027 strain. | Antimicrob Agents Chemother | 2008 |
| 16757612 | Molecular analysis of Clostridium difficile PCR ribotype 027 isolates from Eastern and Western Canada. | J Clin Microbiol | 2006 |