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Publications

The following is a collection of publications that have made use of the GSCID data. If your publication uses this data and isn't listed below, contact us.

Sobel Leonard A, McClain MT, et al.
Deep Sequencing of Influenza A Virus from a Human Challenge Study Reveals a Selective Bottleneck and Only Limited Intrahost Genetic Diversification.

Journal of Virology. 2016 Dec 15; 90: 11247-11258.[more]

Patel MC, Wang W, et al.
Enterovirus D-68 Infection, Prophylaxis, and Vaccination in a Novel Permissive Animal Model, the Cotton Rat (Sigmodon Hispidus).

PloS One. 2016 Nov 01; 11: e0166336.[more]

Nelson MI, Wentworth DE, et al.
Evolutionary Dynamics of Influenza A Viruses in US Exhibition Swine.

The Journal of infectious Diseases. 2016 Jan 15; 213: 173-82.[more]

Stucker KM, Schobel SA, et al.
Haemagglutinin Mutations and Glycosylation Changes Shaped the 2012/13 Influenza A(H3N2) Epidemic, Houston, Texas.

Euro Surveillance : Bulletin Europeìen Sur Les Maladies Transmissibles = European Communicable Disease Bulletin. 2015 Dec 01; 20[more]

Nelson MI, Balmaseda A, et al.
The Evolutionary Dynamics of Influenza A and B Viruses in the Tropical City of Managua, Nicaragua.

Virology. 2014 Jun 21; 462: 81-90.[more]

Zhou B, Lin X, et al.
Universal Influenza B Virus Genomic Amplification Facilitates Sequencing, Diagnostics, and Reverse Genetics.

Journal of Clinical Microbiology. 2014 May 01; 52: 1330-7.[more]

Fries AC, Nolting JM, et al.
Genomic Analyses Detect Eurasian-lineage H10 and Additional H14 Influenza A Viruses Recovered from Waterfowl in the Central United States.

Influenza and Other Respiratory Viruses. 2014 Apr 02;[more]

Dusek RJ, Hallgrimsson GT, et al.
North Atlantic Migratory Bird Flyways Provide Routes for Intercontinental Movement of Avian Influenza Viruses.

PloS One. 2014 Apr 01; 9: e92075.[more]

Westgeest KB, Russell CA, et al.
Genomewide Analysis of Reassortment and Evolution of Human Influenza A(H3N2) Viruses Circulating Between 1968 and 2011.

Journal of Virology. 2014 Mar 01; 88: 2844-57.[more]

Le MQ, Lam HM, et al.
Migration and Persistence of Human Influenza a Viruses, Vietnam, 2001-2008.

Emerging infectious Diseases. 2013 Nov 01; 19: 1756-65.[more]

Sant'anna FH, Borges LG, et al.
Genomic Analysis of Pandemic and Post-pandemic Influenza A PH1N1 Viruses Isolated in Rio Grande Do Sul, Brazil.

Archives of Virology. 2013 Oct 10;[more]

Boyce WM, Schobel S, et al.
Complete Genome Sequence of a Reassortant H14N2 Avian Influenza Virus from California.

Genome Announcements. 2013 Sep 01; 1[more]

Lindsay LL, Kelly TR, et al.
Avian Influenza: Mixed Infections and Missing Viruses.

Viruses. 2013 Sep 01; 5: 1964-77.[more]

Hauser MJ, Dlugolenski D, et al.
Antiviral Responses by Swine Primary Bronchoepithelial Cells Are Limited Compared to Human Bronchoepithelial Cells Following Influenza Virus Infection.

PloS One. 2013 Jul 01; 8: e70251.[more]

Hall JS, Teslaa JL, et al.
Evolution of a Reassortant North American Gull Influenza Virus Lineage: Drift, Shift and Stability.

Virology Journal. 2013 Jun 06; 10: 179.[more]

Zhou B, Pearce MB, et al.
Asparagine Substitution at PB2 Residue 701 Enhances the Replication, Pathogenicity, and Transmission of the 2009 Pandemic H1N1 Influenza A Virus.

PloS One. 2013 Jun 01; 8: e67616.[more]

Ramanunninair M, Le J, et al.
Molecular Signature of High Yield (growth) Influenza a Virus Reassortants Prepared as Candidate Vaccine Seeds.

PloS One. 2013 Jun 01; 8: e65955.[more]

Saira K, Lin X, et al.
Sequence Analysis of In Vivo Defective-interfering (DI)-like RNA of Influenza A H1N1 Pandemic Virus.

Journal of Virology. 2013 May 15;[more]

Keitel WA, Piedra PA, et al.
Rapid Research Response to the 2009 A(H1N1)pdm09 Influenza Pandemic (Revised).

BMC Research Notes. 2013 May 03; 6: 177.[more]

Das SR, Hensley SE, et al.
Defining Influenza A Virus Hemagglutinin Antigenic Drift by Sequential Monoclonal Antibody Selection.

Cell Host & Microbe. 2013 Mar 13; 13: 314-23.[more]

Faix DJ, Hawksworth AW, et al.
Decreased Serologic Response In Vaccinated Military Recruits During 2011 Correspond to Genetic Drift In Concurrent Circulating Pandemic A/H1N1 Viruses.

PloS one. 2012 Sep 01; 7: e34581.[more]

Wang S, Sundaram JP, et al.
VIGOR Extended to Annotate Genomes for Additional 12 Different Viruses.

Nucleic Acids Research. 2012 Jul 01; 40: W186-92.[more]

Lam, T. T., Ip, H. S., et al.
Migratory Flyway and Geographical Distance Are Barriers to the Gene Flow of Influenza Virus Among North American Birds.

Ecology letters. 2012 Jan 01; 15(1): 24-33.[more]

Myers, C. A., Kasper, M. R., et al.
Dual Infection of Novel Influenza Viruses A/H1N1 and A/H3N2 In a Cluster of Cambodian Patients.

The American journal of tropical medicine and hygiene. 2011 Nov 01; 85(5): 961-3.[more]

Holmes, E. C., Ghedin, E., et al.
Extensive Geographical Mixing of 2009 Human H1N1 Influenza A Virus In a Single University Community.

Journal of virology. 2011 Jul 01; 85(14): 6923-9.[more]

Ghedin, E., Laplante, J., et al.
Deep Sequencing Reveals Mixed Infection With 2009 Pandemic Influenza A (H1N1) Virus Strains and the Emergence of Oseltamivir Resistance.

The Journal of infectious diseases. 2011 Jan 15; 203(2): 168-74.[more]

Zhou, B., Li, Y., et al.
PB2 Residue 158 Is a Pathogenic Determinant of Pandemic-H1N1 and H5 Influenza A Viruses In Mice

J Virol. 2010 Oct 20;[more]

Bulach, D., Halpin, R., et al.
Molecular Analysis of H7 Avian Influenza Viruses from Australia and New Zealand: Genetic Diversity and Relationships - 1976 to 2007

J Virol. 2010 Jul 28; 84(19): 9957-66.[more]

Ghedin, E., Wentworth, D. E., et al.
Unseasonal Transmission of H3N2 Influenza A Virus During the Swine-origin H1N1 Pandemic.

Journal of virology. 2010 Jun 01; 84(11). : 5715-8.[more]

Nelson, M., Spiro, D., et al.
The Early Diversification of Influenza A/H1N1pdm

PLoS Curr Influenza. 2009 Dec 01;: RRN1126.[more]

Ghedin, E., Fitch, A., et al.
Mixed Infection and the Genesis of Influenza Diversity

J Virol. 2009 Jun 24;[more]

Nelson, M. I., Simonsen, L., et al.
The Origin and Global Emergence of Adamantane Resistant A/H3N2 Influenza Viruses

Virology. 2009 Jun 05; 388(2): 270-8.[more]

Nelson, M. I., Edelman, L., et al.
Molecular Epidemiology of A/H3N2 and A/H1N1 Influenza Virus During a Single epidemic Season In the United States

PLoS Pathog. 2008 Aug 01; 4(8): e1000133.[more]

Dugan, V.G., Chen, R., et al.
The Evolutionary Genetics and Emergence of Avian Influenza Viruses In Wild Birds

PLoS Pathog. 2008 May 30; 4(5): e1000076.[more]

Rambaut, A., Pybus, O. G., et al.
The Genomic and Epidemiological Dynamics of Human Influenza A Virus

Nature. 2008 May 29; 453(7195): 615-9.[more]

Boni, M. F., Zhou, Y., et al.
Homologous Recombination Is Very Rare or Absent In Human Influenza A Virus

J Virol. 2008 May 01; 82(10): 4807-11.[more]

Nelson, M. I., Viboud, C., et al.
Multiple Reassortment Events In the Evolutionary History of H1N1 Influenza A Virus Since 1918

PLoS Pathog. 2008 Feb 15; 4(2): e1000012.[more]

Bao, Y., Bolotov, P., et al.
The Influenza Virus Resource at the National Center for Biotechnology Information

J Virol. 2008 Jan 01; 82(2): 596-601.[more]

Nelson, M. I., Simonsen, L., et al.
Phylogenetic Analysis Reveals the Global Migration of Seasonal Influenza A Viruses

PLoS Pathog. 2007 Sep 14; 3(9): 1220-8.[more]

Salzberg, S. L., Kingsford, C., et al.
Genome Analysis Linking Recent European and African Influenza (H5N1) Viruses

Emerg Infect Dis. 2007 May 01; 13(5): 713-8.[more]

Nelson, M. I., Simonsen, L., et al.
Stochastic Processes Are Key Determinants of Short-Term Evolution In Influenza A Virus

PLoS Pathog. 2006 Dec 01; 2(12): e125.[more]

Wolf, Y. I., Viboud, C., et al.
Long Intervals of Stasis Punctuated by Bursts of Positive Selection In the Seasonal Evolution of Influenza A Virus

Biol Direct. 2006 Feb 01; 1: 34.[more]

Ghedin, E., Sengamalay, N. A., et al.
Large-scale Sequencing of Human Influenza Reveals the Dynamic Nature of Viral Genome Evolution

Nature. 2005 Oct 05; 437(7062): 1162-6.[more]

Holmes, E. C., Ghedin, E., et al.
Whole-Genome Analysis of Human Influenza A Virus Reveals Multiple Persistent Lineages and Reassortment Among Recent H3N2 Viruses

PLoS Biol. 2005 Jul 26; 3(9): e300.[more]

 
 
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