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Results: 1 to 20 of 45

1.

Estimating overannotation across prokaryotic genomes using BLAST+, UBLAST, LAST and BLAT.

Moreno-Hagelsieb G, Hudy-Yuffa B.

BMC Res Notes. 2014 Sep 16;7(1):651. [Epub ahead of print]

PMID:
25228073
[PubMed - as supplied by publisher]
Free Article
2.

Isolation and characterization of genetic variability in bacteria with β-hemolytic and antifungal activity isolated from the rhizosphere of Medicago truncatula plants.

Hernández-Salmerón JE, Prieto-Barajas CM, Valencia-Cantero E, Moreno-Hagelsieb G, Santoyo G.

Genet Mol Res. 2014 Jul 4;13(3):4967-75. doi: 10.4238/2014.July.4.11.

PMID:
25062484
[PubMed - in process]
Free Article
3.

Quickly finding orthologs as reciprocal best hits with BLAT, LAST, and UBLAST: how much do we miss?

Ward N, Moreno-Hagelsieb G.

PLoS One. 2014 Jul 11;9(7):e101850. doi: 10.1371/journal.pone.0101850. eCollection 2014.

PMID:
25013894
[PubMed - in process]
Free PMC Article
4.

Evaluating Bias of Illumina-Based Bacterial 16S rRNA Gene Profiles.

Kennedy K, Hall MW, Lynch MD, Moreno-Hagelsieb G, Neufeld JD.

Appl Environ Microbiol. 2014 Sep 15;80(18):5717-22. doi: 10.1128/AEM.01451-14. Epub 2014 Jul 7.

PMID:
25002428
[PubMed - in process]
Free Article
5.

Quantitative genome-wide genetic interaction screens reveal global epistatic relationships of protein complexes in Escherichia coli.

Babu M, Arnold R, Bundalovic-Torma C, Gagarinova A, Wong KS, Kumar A, Stewart G, Samanfar B, Aoki H, Wagih O, Vlasblom J, Phanse S, Lad K, Yeou Hsiung Yu A, Graham C, Jin K, Brown E, Golshani A, Kim P, Moreno-Hagelsieb G, Greenblatt J, Houry WA, Parkinson J, Emili A.

PLoS Genet. 2014 Feb 20;10(2):e1004120. doi: 10.1371/journal.pgen.1004120. eCollection 2014 Feb.

PMID:
24586182
[PubMed - in process]
Free PMC Article
6.

Meeting report: 1st international functional metagenomics workshop may 7-8, 2012, st. Jacobs, ontario, Canada.

Engel K, Ashby D, Brady SF, Cowan DA, Doemer J, Edwards EA, Fiebig K, Martens EC, McCormac D, Mead DA, Miyazaki K, Moreno-Hagelsieb G, O'Gara F, Reid A, Rose DR, Simonet P, Sjöling S, Smalla K, Streit WR, Tedman-Jones J, Valla S, Wellington EM, Wu CC, Liles MR, Neufeld JD, Sessitsch A, Charles TC.

Stand Genomic Sci. 2013 Apr 15;8(1):106-11. doi: 10.4056/sigs.3406845. eCollection 2013 Apr 15.

PMID:
23961315
[PubMed]
Free PMC Article
7.

Phylogenomic clustering for selecting non-redundant genomes for comparative genomics.

Moreno-Hagelsieb G, Wang Z, Walsh S, ElSherbiny A.

Bioinformatics. 2013 Apr 1;29(7):947-9. doi: 10.1093/bioinformatics/btt064. Epub 2013 Feb 8.

PMID:
23396122
[PubMed - indexed for MEDLINE]
Free Article
8.

Metagenomic annotation networks: construction and applications.

Vey G, Moreno-Hagelsieb G.

PLoS One. 2012;7(8):e41283. doi: 10.1371/journal.pone.0041283. Epub 2012 Aug 7.

PMID:
22879885
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

The evolutionary dynamics of functional modules and the extraordinary plasticity of regulons: the Escherichia coli perspective.

Moreno-Hagelsieb G, Jokic P.

Nucleic Acids Res. 2012 Aug;40(15):7104-12. doi: 10.1093/nar/gks443. Epub 2012 May 22.

PMID:
22618875
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Bacterial biogeography of the human digestive tract.

Stearns JC, Lynch MD, Senadheera DB, Tenenbaum HC, Goldberg MB, Cvitkovitch DG, Croitoru K, Moreno-Hagelsieb G, Neufeld JD.

Sci Rep. 2011;1:170. doi: 10.1038/srep00170. Epub 2011 Nov 25.

PMID:
22355685
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Open resource metagenomics: a model for sharing metagenomic libraries.

Neufeld JD, Engel K, Cheng J, Moreno-Hagelsieb G, Rose DR, Charles TC.

Stand Genomic Sci. 2011 Nov 30;5(2):203-10. doi: 10.4056/sigs.1974654. Epub 2011 Nov 23.

PMID:
22180823
[PubMed]
Free PMC Article
12.

Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways.

Babu M, Díaz-Mejía JJ, Vlasblom J, Gagarinova A, Phanse S, Graham C, Yousif F, Ding H, Xiong X, Nazarians-Armavil A, Alamgir M, Ali M, Pogoutse O, Pe'er A, Arnold R, Michaut M, Parkinson J, Golshani A, Whitfield C, Wodak SJ, Moreno-Hagelsieb G, Greenblatt JF, Emili A.

PLoS Genet. 2011 Nov;7(11):e1002377. doi: 10.1371/journal.pgen.1002377. Epub 2011 Nov 17.

PMID:
22125496
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Generation of multimillion-sequence 16S rRNA gene libraries from complex microbial communities by assembling paired-end illumina reads.

Bartram AK, Lynch MD, Stearns JC, Moreno-Hagelsieb G, Neufeld JD.

Appl Environ Microbiol. 2011 Jun;77(11):3846-52. doi: 10.1128/AEM.02772-10. Epub 2011 Apr 1. Erratum in: Appl Environ Microbiol. 2011 Aug;77(15):5569.

PMID:
21460107
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Phylogenetic distribution and evolutionary history of bacterial DEAD-Box proteins.

López-Ramírez V, Alcaraz LD, Moreno-Hagelsieb G, Olmedo-Álvarez G.

J Mol Evol. 2011 Apr;72(4):413-31. doi: 10.1007/s00239-011-9441-8. Epub 2011 Mar 25.

PMID:
21437710
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

The pseudogenes of Mycobacterium leprae reveal the functional relevance of gene order within operons.

Muro EM, Mah N, Moreno-Hagelsieb G, Andrade-Navarro MA.

Nucleic Acids Res. 2011 Mar;39(5):1732-8. doi: 10.1093/nar/gkq1067. Epub 2010 Nov 4.

PMID:
21051341
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Network-based function prediction and interactomics: the case for metabolic enzymes.

Janga SC, Díaz-Mejía JJ, Moreno-Hagelsieb G.

Metab Eng. 2011 Jan;13(1):1-10. doi: 10.1016/j.ymben.2010.07.001. Epub 2010 Jul 21. Review.

PMID:
20654726
[PubMed - indexed for MEDLINE]
17.

Understanding the evolutionary relationships and major traits of Bacillus through comparative genomics.

Alcaraz LD, Moreno-Hagelsieb G, Eguiarte LE, Souza V, Herrera-Estrella L, Olmedo G.

BMC Genomics. 2010 May 26;11:332. doi: 10.1186/1471-2164-11-332.

PMID:
20504335
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Characterization of the NifA-RpoN regulon in Rhizobium etli in free life and in symbiosis with Phaseolus vulgaris.

Salazar E, Díaz-Mejía JJ, Moreno-Hagelsieb G, Martínez-Batallar G, Mora Y, Mora J, Encarnación S.

Appl Environ Microbiol. 2010 Jul;76(13):4510-20. doi: 10.1128/AEM.02007-09. Epub 2010 May 7.

PMID:
20453139
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Beyond the bounds of orthology: functional inference from metagenomic context.

Vey G, Moreno-Hagelsieb G.

Mol Biosyst. 2010 Jul;6(7):1247-54. doi: 10.1039/b919263h. Epub 2010 Apr 23.

PMID:
20419183
[PubMed - indexed for MEDLINE]
20.

Probing teichoic acid genetics with bioactive molecules reveals new interactions among diverse processes in bacterial cell wall biogenesis.

D'Elia MA, Millar KE, Bhavsar AP, Tomljenovic AM, Hutter B, Schaab C, Moreno-Hagelsieb G, Brown ED.

Chem Biol. 2009 May 29;16(5):548-56. doi: 10.1016/j.chembiol.2009.04.009.

PMID:
19477419
[PubMed - indexed for MEDLINE]
Free Article

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