Publications

Nature. 2013-07-11; 499.7457: 209-13.
Pan genome of the phytoplankton Emiliania underpins its global distribution
Allen AE, Bidle K, Borodovsky M, Bowler C, Brownlee C, Cock JM, Elias M, Gladyshev VN, Groth M, Guda C, Hadaegh A, Iglesias-Rodriguez MD, Jenkins J, Jones BM, Lawson T, Leese F, Lindquist E, Lobanov A, Lomsadze A, Malik SB, Marsh ME, Mackinder L, Mock T, Mueller-Roeber B, Pagarete A, Parker M, Probert I, Quesneville H, Raines C, Rensing SA, Riaño-Pachón DM, Richier S, Rokitta S, Shiraiwa Y, Soanes DM, van der Giezen M, Wahlund TM, Williams B, Wilson W, Wolfe G, Wurch LL
PMID: 23760476
Source code for biology and medicine. 2013-07-03; 8.1: 14.
GenePattern flow cytometry suite
Spidlen J, Barsky A, Breuer K, Carr P, Nazaire MD, Hill BA, Qian Y, Liefeld T, Reich M, Mesirov JP, Wilkinson P, Scheuermann RH, Sekaly RP, Brinkman RR
PMID: 23822732
Journal of biological engineering. 2013-07-02; 7.1: 17.
Dual organism design cycle reveals small subunit substitutions that improve [NiFe] hydrogenase hydrogen evolution
Yonemoto IT, Matteri CW, Nguyen TA, Smith HO, Weyman PD
PMID: 23819621
World journal of microbiology & biotechnology. 2013-07-01; 29.7: 1225-32.
Increasing reducing power output (NADH) of glucose catabolism for reduction of xylose to xylitol by genetically engineered Escherichia coli AI05
Iverson A, Garza E, Zhao J, Wang Y, Zhao X, Wang J, Manow R, Zhou S
PMID: 23435875
Nucleic acids research. 2013-07-01; 41.Web Server issue: W22-8.
aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity
Kuraku S, Zmasek CM, Nishimura O, Katoh K
PMID: 23677614
Journal of virology. 2013-07-01; 87.14: 8064-74.
Sequence analysis of in vivo defective interfering-like RNA of influenza A H1N1 pandemic virus
Munroe D, Saira K, Rappoport C, Lin X, Schwarze S, DePasse JV, Aagaard B, Halpin R, Adzic D, Twaddle A, Grarup J, Stockwell T, Herrero P, Angus B, Jansson P, Cozzi-Lepri A, Kjær J, Delfino M, Jakobsen M, Dugan V, Jensen B, Dwyer DE, Jensen K, Freiberg M, Juncher H, Horban A, Lopez P, Losso M, Mocroft A, Lynfield R, Pearson M, Wentworth DN, Portas B, Holmes EC, Sabin C, Davey R, Tillmann K, Wentworth DE, Babiker A, Ghedin E, Braimah N, INSIGHT FLU002 Study Group, Collaco-Moraes Y, INSIGHT FLU003 Study Group, Hudson F, Kummeling I, Pacciarini F, Paton N, DuChene A, George M, Harrison M, Krum E, Larson G, Nelson R, Quan K, Quan S, Reilly C, Schultz T, Thompson G, Wyman N, Avihingsanon A, Cassar L, Charoentonpuban K, Emery S, Laohajinda K, Jupimai T, Lanusse I, Moricz A, Otegui I, Ruxrungtham K, Robson R, Finley E, Gordin F, Sanchez A, Vjecha M, Baxter J, Brown S, Hoover M, Baseler B, Metcalf J, Cox N, Gubareva L, Hancock K, Katz J, Klimov A, Shaw M, Rubinson L, Barcan L, Corral J, David D, Laplume H, Lasala M, Lopardo G, Losso M, Lupo S, Warley E, Bloch M, Dwyer D, Moore R, Pett S, Roth N, Soo T, Vlahakis E, Burgmann H, Clumeck N, De Wit S, Florence E, Kabeya K, Weckx J, Perez C, Wolff M, Gerstoft J, Lundgren J, Ostergaard L, Zilmer K, Bogner J, Brockmeyer N, Faetkenheuer G, Klinker H, Plettenberg A, Rockstroh J, Stephan C, Antoniadou A, Koratzanis G, Koulouris N, Polixronopoulos V, Sambatakou H, Vasilopoulos N, Caplinskas S, La Rosa A, Mendo F, Salazar R, Valencia J, Bakowska E, Horban A, Knysz B, Antunes F, Doroana M, Padayatchi N, Dalmau D, Fernandez-Cruz E, Gatell J, Sanz J, Soriano V, Chetchotisakd P, Suwanpimolkul G, Leen C, Cohen C, Cohn D, DeHovitz J, El-Sadr W, Glesby M, Gordin F, Hodder S, Markowitz N, Novak R, Schooley R, Simon G, Tedaldi E, Temesgen Z, Timpone J, Uslan D, Wade B, Elliott J, Konecny P, McBride J, Jorens P, Wu T, Mathiesen L, Nielsen H, Pedersen S, Bergmann F, Maagaard A, Estrada V, Freud H, Garrido R, Moreno J, Pano-Pardo J, Angus B, Chadwick D, Dockrell D, Newport M, Wilkins E, Anderson H, Baker J, El-Sadr WA, Freiberg M, Gulick R, Gurka D, Paez A, Patil N, Reboli A, Sands M
PMID: 23678180
The ISME journal. 2013-07-01; 7.7: 1344-53.
Habitat degradation impacts black howler monkey (Alouatta pigra) gastrointestinal microbiomes
Amato KR, Yeoman CJ, Kent A, Righini N, Carbonero F, Estrada A, Gaskins HR, Stumpf RM, Yildirim S, Torralba M, Gillis M, Wilson BA, Nelson KE, White BA, Leigh SR
PMID: 23486247
Environmental microbiology. 2013-07-01; 15.7: 2082-94.
The Montastraea faveolata microbiome: ecological and temporal influences on a Caribbean reef-building coral in decline
Kimes NE, Johnson WR, Torralba M, Nelson KE, Weil E, Morris PJ
PMID: 23750924
Proceedings of the National Academy of Sciences of the United States of America. 2013-06-25; 110.26: E2390-9.
Candidate phylum TM6 genome recovered from a hospital sink biofilm provides genomic insights into this uncultivated phylum
McLean JS, Lombardo MJ, Badger JH, Edlund A, Novotny M, Yee-Greenbaum J, Vyahhi N, Hall AP, Yang Y, Dupont CL, Ziegler MG, Chitsaz H, Allen AE, Yooseph S, Tesler G, Pevzner PA, Friedman RM, Nealson KH, Venter JC, Lasken RS
PMID: 23754396
PloS one. 2013-06-19; 8.6: e66462.
Proteomic View of Interactions of Shiga Toxin-Producing Escherichia coli with the Intestinal Environment in Gnotobiotic Piglets
Pieper R, Zhang Q, Clark DJ, Parmar PP, Alami H, Suh MJ, Kuntumalla S, Braisted JC, Huang ST, Tzipori S
PMID: 23840478