Influenza research database: an integrated bioinformatics resource for influenza research and surveillance

Squires RB, Noronha J, Hunt V, García-Sastre A, Macken C, Baumgarth N, Suarez D, Pickett BE, Zhang Y, Larsen CN, Ramsey A, Zhou L, Zaremba S, Kumar S, Deitrich J, Klem E, Scheuermann RH.
Influenza Other Respi Viruses 2012

Influenza virus sequence feature variant type analysis: evidence of a role for NS1 in influenza virus host range restriction

Noronha JM, Liu M, Squires RB, Pickett BE, Hale BG, Air GM, Galloway SE, Takimoto T, Schmolke M, Hunt V, Klem E, García-Sastre A, McGee M, Scheuermann RH
J Virol 2012

Metadata-driven comparative analysis tool for sequences (meta-CATS): an automated process for identifying significant sequence variations that correlate with virus attributes

Pickett BE, Liu M, Sadat EL, Squires RB, Noronha JM, He S, Jen W, Zaremba S, Gu Z, Zhou L, Larsen CN, Bosch I, Gehrke L, McGee M, Klem EB, Scheuermann RH
Virology 2013

Standardized metadata for human pathogen/vector genomic sequences.

Dugan VG,Emrich SJ,Giraldo-Calderon GI,Harb OS,Newman RM,Pickett BE,Schriml LM,Stockwell TB,Stoeckert CJ Jr,Sullivan DE,Singh I,Ward DV,Yao A,Zheng J,Barrett T,Birren B,Brinkac L,Bruno VM,Caler E,Chapman S,Collins FH,Cuomo CA,Di Francesco V,Durkin S,Eppinger M,Feldgarden M,Fraser C,Fricke WF,Giovanni M,Henn MR,Hine E,Hotopp JD,Karsch-Mizrachi I,Kissinger JC,Lee EM,Mathur P,Mongodin EF,Murphy CI,Myers G,Neafsey DE,Nelson KE,Nierman WC,Puzak J,Rasko D,Roos DS,Sadzewicz L,Silva JC,Sobral B,Squires RB,Stevens RL,Tallon L,Tettelin H,Wentworth D,White O,Will R,Wortman J,Zhang Y,Scheuermann RH
PLoS One 2014

A comprehensive collection of systems biology data characterizing the host response to viral infection.

Aevermann BD,Pickett BE,Kumar S,Klem EB,Agnihothram S,Askovich PS,Bankhead A 3rd,Bolles M,Carter V,Chang J,Clauss TR,Dash P,Diercks AH,Eisfeld AJ,Ellis A,Fan S,Ferris MT,Gralinski LE,Green RR,Gritsenko MA,Hatta M,Heegel RA,Jacobs JM,Jeng S,Josset L,Kaiser SM,Kelly S,Law GL,Li C,Li J,Long C,Luna ML,Matzke M,McDermott J,Menachery V,Metz TO,Mitchell H,Monroe ME,Navarro G,Neumann G,Podyminogin RL,Purvine SO,Rosenberger CM,Sanders CJ,Schepmoes AA,Shukla AK,Sims A,Sova P,Tam VC,Tchitchek N,Thomas PG,Tilton SC,Totura A,Wang J,Webb-Robertson BJ,Wen J,Weiss JM,Yang F,Yount B,Zhang Q,McWeeney S,Smith RD,Waters KM,Kawaoka Y,Baric R,Aderem A,Katze MG,Scheuermann RH
Sci Data 2014

Toward a method for tracking virus evolutionary trajectory applied to the pandemic H1N1 2009 influenza virus.

Squires RB,Pickett BE,Das S,Scheuermann RH
Infect Genet Evol 2014

Diversifying Selection Analysis Predicts Antigenic Evolution of 2009 Pandemic H1N1 Influenza A Virus in Humans.

Lee AJ,Das SR,Wang W,Fitzgerald T,Pickett BE,Aevermann BD,Topham DJ,Falsey AR,Scheuermann RH
J Virol 2015

A RESTful API for Access to Phylogenetic Tools via the CIPRES Science Gateway.

Miller MA,Schwartz T,Pickett BE,He S,Klem EB,Scheuermann RH,Passarotti M,Kaufman S,O'Leary MA
Evol Bioinform Online 2015