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Results: 16

1.

Comparative genomics and functional analysis of rhamnose catabolic pathways and regulons in bacteria.

Rodionova IA, Li X, Thiel V, Stolyar S, Stanton K, Fredrickson JK, Bryant DA, Osterman AL, Best AA, Rodionov DA.

Front Microbiol. 2013 Dec 23;4:407. doi: 10.3389/fmicb.2013.00407. eCollection 2013.

PMID:
24391637
[PubMed]
Free PMC Article
2.

Cluster J mycobacteriophages: intron splicing in capsid and tail genes.

Pope WH, Jacobs-Sera D, Best AA, Broussard GW, Connerly PL, Dedrick RM, Kremer TA, Offner S, Ogiefo AH, Pizzorno MC, Rockenbach K, Russell DA, Stowe EL, Stukey J, Thibault SA, Conway JF, Hendrix RW, Hatfull GF.

PLoS One. 2013 Jul 9;8(7):e69273. doi: 10.1371/journal.pone.0069273. Print 2013.

PMID:
23874930
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Automated genome annotation and metabolic model reconstruction in the SEED and Model SEED.

Devoid S, Overbeek R, DeJongh M, Vonstein V, Best AA, Henry C.

Methods Mol Biol. 2013;985:17-45. doi: 10.1007/978-1-62703-299-5_2.

PMID:
23417797
[PubMed - indexed for MEDLINE]
4.

Genomic reconstruction of transcriptional regulatory networks in lactic acid bacteria.

Ravcheev DA, Best AA, Sernova NV, Kazanov MD, Novichkov PS, Rodionov DA.

BMC Genomics. 2013 Feb 12;14:94. doi: 10.1186/1471-2164-14-94.

PMID:
23398941
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Diversity and versatility of the Thermotoga maritima sugar kinome.

Rodionova IA, Yang C, Li X, Kurnasov OV, Best AA, Osterman AL, Rodionov DA.

J Bacteriol. 2012 Oct;194(20):5552-63. Epub 2012 Aug 10.

PMID:
22885293
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Evaluating the consistency of gene sets used in the analysis of bacterial gene expression data.

Tintle NL, Sitarik A, Boerema B, Young K, Best AA, Dejongh M.

BMC Bioinformatics. 2012 Aug 8;13:193. doi: 10.1186/1471-2105-13-193.

PMID:
22873695
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

Inference of the transcriptional regulatory network in Staphylococcus aureus by integration of experimental and genomics-based evidence.

Ravcheev DA, Best AA, Tintle N, Dejongh M, Osterman AL, Novichkov PS, Rodionov DA.

J Bacteriol. 2011 Jul;193(13):3228-40. doi: 10.1128/JB.00350-11. Epub 2011 Apr 29.

PMID:
21531804
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Connecting genotype to phenotype in the era of high-throughput sequencing.

Henry CS, Overbeek R, Xia F, Best AA, Glass E, Gilbert J, Larsen P, Edwards R, Disz T, Meyer F, Vonstein V, Dejongh M, Bartels D, Desai N, D'Souza M, Devoid S, Keegan KP, Olson R, Wilke A, Wilkening J, Stevens RL.

Biochim Biophys Acta. 2011 Oct;1810(10):967-77. doi: 10.1016/j.bbagen.2011.03.010. Epub 2011 Mar 21. Review.

PMID:
21421023
[PubMed - indexed for MEDLINE]
Free Article
9.

Expanding the diversity of mycobacteriophages: insights into genome architecture and evolution.

Pope WH, Jacobs-Sera D, Russell DA, Peebles CL, Al-Atrache Z, Alcoser TA, Alexander LM, Alfano MB, Alford ST, Amy NE, Anderson MD, Anderson AG, Ang AA, Ares M Jr, Barber AJ, Barker LP, Barrett JM, Barshop WD, Bauerle CM, Bayles IM, Belfield KL, Best AA, Borjon A Jr, Bowman CA, Boyer CA, Bradley KW, Bradley VA, Broadway LN, Budwal K, Busby KN, Campbell IW, Campbell AM, Carey A, Caruso SM, Chew RD, Cockburn CL, Cohen LB, Corajod JM, Cresawn SG, Davis KR, Deng L, Denver DR, Dixon BR, Ekram S, Elgin SC, Engelsen AE, English BE, Erb ML, Estrada C, Filliger LZ, Findley AM, Forbes L, Forsyth MH, Fox TM, Fritz MJ, Garcia R, George ZD, Georges AE, Gissendanner CR, Goff S, Goldstein R, Gordon KC, Green RD, Guerra SL, Guiney-Olsen KR, Guiza BG, Haghighat L, Hagopian GV, Harmon CJ, Harmson JS, Hartzog GA, Harvey SE, He S, He KJ, Healy KE, Higinbotham ER, Hildebrandt EN, Ho JH, Hogan GM, Hohenstein VG, Holz NA, Huang VJ, Hufford EL, Hynes PM, Jackson AS, Jansen EC, Jarvik J, Jasinto PG, Jordan TC, Kasza T, Katelyn MA, Kelsey JS, Kerrigan LA, Khaw D, Kim J, Knutter JZ, Ko CC, Larkin GV, Laroche JR, Latif A, Leuba KD, Leuba SI, Lewis LO, Loesser-Casey KE, Long CA, Lopez AJ, Lowery N, Lu TQ, Mac V, Masters IR, McCloud JJ, McDonough MJ, Medenbach AJ, Menon A, Miller R, Morgan BK, Ng PC, Nguyen E, Nguyen KT, Nguyen ET, Nicholson KM, Parnell LA, Peirce CE, Perz AM, Peterson LJ, Pferdehirt RE, Philip SV, Pogliano K, Pogliano J, Polley T, Puopolo EJ, Rabinowitz HS, Resiss MJ, Rhyan CN, Robinson YM, Rodriguez LL, Rose AC, Rubin JD, Ruby JA, Saha MS, Sandoz JW, Savitskaya J, Schipper DJ, Schnitzler CE, Schott AR, Segal JB, Shaffer CD, Sheldon KE, Shepard EM, Shepardson JW, Shroff MK, Simmons JM, Simms EF, Simpson BM, Sinclair KM, Sjoholm RL, Slette IJ, Spaulding BC, Straub CL, Stukey J, Sughrue T, Tang TY, Tatyana LM, Taylor SB, Taylor BJ, Temple LM, Thompson JV, Tokarz MP, Trapani SE, Troum AP, Tsay J, Tubbs AT, Walton JM, Wang DH, Wang H, Warner JR, Weisser EG, Wendler SC, Weston-Hafer KA, Whelan HM, Williamson KE, Willis AN, Wirtshafter HS, Wong TW, Wu P, Yang Yj, Yee BC, Zaidins DA, Zhang B, ZĂșniga MY, Hendrix RW, Hatfull GF.

PLoS One. 2011 Jan 27;6(1):e16329. doi: 10.1371/journal.pone.0016329.

PMID:
21298013
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

High-throughput generation, optimization and analysis of genome-scale metabolic models.

Henry CS, DeJongh M, Best AA, Frybarger PM, Linsay B, Stevens RL.

Nat Biotechnol. 2010 Sep;28(9):977-82. doi: 10.1038/nbt.1672. Epub 2010 Aug 29.

PMID:
20802497
[PubMed - indexed for MEDLINE]
11.

Gene set analyses for interpreting microarray experiments on prokaryotic organisms.

Tintle NL, Best AA, DeJongh M, Van Bruggen D, Heffron F, Porwollik S, Taylor RC.

BMC Bioinformatics. 2008 Nov 5;9:469. doi: 10.1186/1471-2105-9-469.

PMID:
18986519
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

The RAST Server: rapid annotations using subsystems technology.

Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K, Gerdes S, Glass EM, Kubal M, Meyer F, Olsen GJ, Olson R, Osterman AL, Overbeek RA, McNeil LK, Paarmann D, Paczian T, Parrello B, Pusch GD, Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O.

BMC Genomics. 2008 Feb 8;9:75. doi: 10.1186/1471-2164-9-75.

PMID:
18261238
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Genomic minimalism in the early diverging intestinal parasite Giardia lamblia.

Morrison HG, McArthur AG, Gillin FD, Aley SB, Adam RD, Olsen GJ, Best AA, Cande WZ, Chen F, Cipriano MJ, Davids BJ, Dawson SC, Elmendorf HG, Hehl AB, Holder ME, Huse SM, Kim UU, Lasek-Nesselquist E, Manning G, Nigam A, Nixon JE, Palm D, Passamaneck NE, Prabhu A, Reich CI, Reiner DS, Samuelson J, Svard SG, Sogin ML.

Science. 2007 Sep 28;317(5846):1921-6.

PMID:
17901334
[PubMed - indexed for MEDLINE]
Free Article
14.

Evolution of eukaryotic transcription: insights from the genome of Giardia lamblia.

Best AA, Morrison HG, McArthur AG, Sogin ML, Olsen GJ.

Genome Res. 2004 Aug;14(8):1537-47.

PMID:
15289474
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Similar subunit architecture of archaeal and eukaryal RNA polymerases.

Best AA, Olsen GJ.

FEMS Microbiol Lett. 2001 Feb 5;195(1):85-90.

PMID:
11167000
[PubMed - indexed for MEDLINE]
16.

Psychological and emotional effect of cosmetic surgery.

BEST AA, HELLMAN LI.

West Med Med J West. 1960 Jul;1:8-9 passim. No abstract available.

PMID:
13868577
[PubMed - indexed for MEDLINE]

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