Publications

PloS one. 2012-01-01; 7.5: e32219.
Identifying low pH active and lactate-utilizing taxa within oral microbiome communities from healthy children using stable isotope probing techniques
McLean JS, Fansler SJ, Majors PD, McAteer K, Allen LZ, Shirtliff ME, Lux R, Shi W
PMID: 22403637
Database : the journal of biological databases and curation. 2012-01-01; 2012.bas003.
AntiFam: a tool to help identify spurious ORFs in protein annotation
Eberhardt RY, Haft DH, Punta M, Martin M, O'Donovan C, Bateman A
PMID: 22434837
PloS one. 2012-01-01; 7.5: e34064.
The natural product domain seeker NaPDoS: a phylogeny based bioinformatic tool to classify secondary metabolite gene diversity
Ziemert N, Podell S, Penn K, Badger JH, Allen E, Jensen PR
PMID: 22479523
PloS one. 2012-01-01; 7.3: e33903.
Comparative omics-driven genome annotation refinement: application across Yersiniae
Schrimpe-Rutledge AC, Jones MB, Chauhan S, Purvine SO, Sanford JA, Monroe ME, Brewer HM, Payne SH, Ansong C, Frank BC, Smith RD, Peterson SN, Motin VL, Adkins JN
PMID: 22479471
Nucleic acids research. 2012-01-01; 40.Database issue: D306-12.
InterPro in 2011: new developments in the family and domain prediction database
Hunter S, Jones P, Mitchell A, Apweiler R, Attwood TK, Bateman A, Bernard T, Binns D, Bork P, Burge S, de Castro E, Coggill P, Corbett M, Das U, Daugherty L, Duquenne L, Finn RD, Fraser M, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, McMenamin C, Mi H, Mutowo-Muellenet P, Mulder N, Natale D, Orengo C, Pesseat S, Punta M, Quinn AF, Rivoire C, Sangrador-Vegas A, Selengut JD, Sigrist CJ, Scheremetjew M, Tate J, Thimmajanarthanan M, Thomas PD, Wu CH, Yeats C, Yong SY
PMID: 22096229
Molecular biology and evolution. 2012-01-01; 29.1: 367-79.
Evolution and functional diversification of fructose bisphosphate aldolase genes in photosynthetic marine diatoms
Allen AE, Moustafa A, Montsant A, Eckert A, Kroth PG, Bowler C
PMID: 21903677
Current chemical genomics. 2012-01-01; 6.8-17.
The HaloTag: Improving Soluble Expression and Applications in Protein Functional Analysis
N Peterson S, Kwon K
PMID: 23115610
PloS one. 2012-01-01; 7.5: e29879.
Innate immune response of human alveolar macrophages during influenza A infection
Wang J, Nikrad MP, Travanty EA, Zhou B, Phang T, Gao B, Alford T, Ito Y, Nahreini P, Hartshorn K, Wentworth D, Dinarello CA, Mason RJ
PMID: 22396727
PloS one. 2012-01-01; 7.6: e29044.
A case study for large-scale human microbiome analysis using JCVI's metagenomics reports (METAREP)
Goll J, Thiagarajan M, Abubucker S, Huttenhower C, Yooseph S, Methé BA
PMID: 22719821
PLoS computational biology. 2012-01-01; 8.6: e1002358.
Metabolic reconstruction for metagenomic data and its application to the human microbiome
Abubucker S, Segata N, Goll J, Schubert AM, Izard J, Cantarel BL, Rodriguez-Mueller B, Zucker J, Thiagarajan M, Henrissat B, White O, Kelley ST, Methé B, Schloss PD, Gevers D, Mitreva M, Huttenhower C
PMID: 22719234

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