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Items: 1 to 20 of 33

1.
Traceability, reproducibility and wiki-exploration for “à-la-carte” reconstructions of genome-scale metabolic models
Méziane Aite, Marie Chevallier, Clémence Frioux, Camille Trottier, Jeanne Got, María Paz Cortés, Sebastián N. Mendoza, Grégory Carrier, Olivier Dameron, Nicolas Guillaudeux, Mauricio Latorre, Nicolás Loira, Gabriel V. Markov, Alejandro Maass, Anne Siegel
PLoS Comput Biol. 2018 May; 14(5): e1006146. Published online 2018 May 23. doi: 10.1371/journal.pcbi.1006146
PMCID:
PMC5988327
AbstractArticlePDF–6.2M
2.
Comparative Genomics and Transcriptional Analysis of Flavobacterium columnare Strain ATCC 49512
Hasan C. Tekedar, Attila Karsi, Joseph S. Reddy, Seong W. Nho, Safak Kalindamar, Mark L. Lawrence
Front Microbiol. 2017; 8: 588. Published online 2017 Apr 19. doi: 10.3389/fmicb.2017.00588
PMCID:
PMC5395568
AbstractArticlePDF–2.8M
3.
Comparative Genomics Reveals New Candidate Genes Involved in Selenium Metabolism in Prokaryotes
Jie Lin, Ting Peng, Liang Jiang, Jia-Zuan Ni, Qiong Liu, Luonan Chen, Yan Zhang
Genome Biol Evol. 2015 Mar; 7(3): 664–676. Published online 2015 Jan 31. doi: 10.1093/gbe/evv022
PMCID:
PMC5322559
AbstractArticlePDF–381K
4.
The bacterial DnaA-trio replication origin element specifies ssDNA initiator binding
Tomas T. Richardson, Omar Harran, Heath Murray
Nature. Author manuscript; available in PMC 2016 Dec 8.
Published in final edited form as: Nature. 2016 Jun 8; 534(7607): 412–416. Published online 2016 Jun 8. doi: 10.1038/nature17962
Correction in:
Nature. 2016 Jun 29; 536(7617): 488.
PMCID:
PMC4913881
AbstractArticlePDF–3.9M
5.
GeLC-MS-based proteomics of Chromobacterium violaceum: comparison of proteome changes elicited by hydrogen peroxide
D. C. Lima, F. T. Duarte, V. K. S. Medeiros, P. C. Carvalho, F. C. S. Nogueira, G. D. T. Araujo, G. B. Domont, S. R. Batistuzzo de Medeiros
Sci Rep. 2016; 6: 28174. Published online 2016 Jun 20. doi: 10.1038/srep28174
PMCID:
PMC4913304
AbstractArticlePDF–914K
6.
Metataxonomic and Metagenomic Approaches vs. Culture-Based Techniques for Clinical Pathology
Sarah K. Hilton, Eduardo Castro-Nallar, Marcos Pérez-Losada, Ian Toma, Timothy A. McCaffrey, Eric P. Hoffman, Marc O. Siegel, Gary L. Simon, W. Evan Johnson, Keith A. Crandall
Front Microbiol. 2016; 7: 484. Published online 2016 Apr 7. doi: 10.3389/fmicb.2016.00484
PMCID:
PMC4823605
AbstractArticlePDF–1.0M
7.
Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data
Melanie Schirmer, Rosalinda D’Amore, Umer Z. Ijaz, Neil Hall, Christopher Quince
BMC Bioinformatics. 2016; 17: 125. Published online 2016 Mar 11. doi: 10.1186/s12859-016-0976-y
PMCID:
PMC4787001
AbstractArticlePDF–1.7M
8.
A comprehensive benchmarking study of protocols and sequencing platforms for 16S rRNA community profiling
Rosalinda D’Amore, Umer Zeeshan Ijaz, Melanie Schirmer, John G. Kenny, Richard Gregory, Alistair C. Darby, Migun Shakya, Mircea Podar, Christopher Quince, Neil Hall
BMC Genomics. 2016; 17: 55. Published online 2016 Jan 14. doi: 10.1186/s12864-015-2194-9
PMCID:
PMC4712552
AbstractArticlePDF–1.2M
9.
Surface protein EF3314 contributes to virulence properties of Enterococcus faecalis
ROBERTA CRETI, FRANCESCA FABRETTI, STEFANIE KOCH, JOHANNES HUEBNER, DANIELLE A. GARSIN, LUCILLA BALDASSARRI, LUCIO MONTANARO, CARLA RENATA ARCIOLA
Int J Artif Organs. Author manuscript; available in PMC 2015 Mar 6.
Published in final edited form as: Int J Artif Organs. 2009 Sep; 32(9): 611–620. doi: 10.1177/039139880903200910
PMCID:
PMC4351668
AbstractArticlePDF–753K
10.
Genome-wide gene order distances support clustering the gram-positive bacteria
Christopher H. House, Matteo Pellegrini, Sorel T. Fitz-Gibbon
Front Microbiol. 2014; 5: 785. Published online 2015 Jan 20. doi: 10.3389/fmicb.2014.00785
PMCID:
PMC4299520
AbstractArticlePDF–8.7M
11.
A TIR Domain Protein from E. faecalis Attenuates MyD88-Mediated Signaling and NF-κB Activation
Jun Zou, Arto S. Baghdayan, Sarah J. Payne, Nathan Shankar
PLoS One. 2014; 9(11): e112010. Published online 2014 Nov 4. doi: 10.1371/journal.pone.0112010
PMCID:
PMC4219826
AbstractArticlePDF–1.1M
12.
Association of purine asymmetry, strand-biased gene distribution and PolC within Firmicutes and beyond: a new appraisal
Sanjoy Kumar Saha, Aranyak Goswami, Chitra Dutta
BMC Genomics. 2014; 15(1): 430. Published online 2014 Jun 4. doi: 10.1186/1471-2164-15-430
PMCID:
PMC4070872
AbstractArticlePDF–2.6M
13.
Protein Languages Differ Depending on Microorganism Lifestyle
Joseph J. Grzymski, Adam G. Marsh
PLoS One. 2014; 9(5): e96910. Published online 2014 May 14. doi: 10.1371/journal.pone.0096910
PMCID:
PMC4020791
AbstractArticlePDF–1.7M
14.
Annotation of Protein Domains Reveals Remarkable Conservation in the Functional Make up of Proteomes Across Superkingdoms
Arshan Nasir, Aisha Naeem, Muhammad Jawad Khan, Horacio D. Lopez-Nicora, Gustavo Caetano-Anollés
Genes (Basel) 2011 Dec; 2(4): 869–911. Published online 2011 Nov 8. doi: 10.3390/genes2040869
PMCID:
PMC3927607
AbstractArticlePDF–2.0M
15.
Dependence of the product chain-length on detergents for long-chain E-polyprenyl diphosphate synthases
Jian-Jung Pan, Gurusankar Ramamoorthy, C. Dale Poulter
Biochemistry. Author manuscript; available in PMC 2014 Jul 23.
Published in final edited form as: Biochemistry. 2013 Jul 23; 52(29): 10.1021/bi400681d. Published online 2013 Jul 11. doi: 10.1021/bi400681d
PMCID:
PMC3855619
AbstractArticlePDF–3.0M
16.
Complete Genome Analysis of a Haemophilus parasuis Serovar 12 Strain from China
Yufeng Li, Amy H. Y. Kwok, Jingwei Jiang, Yao Zou, Fangyuan Zheng, Pan Chen, Chengcai Hou, Frederick C. Leung, Ping Jiang
PLoS One. 2013; 8(9): e68350. Published online 2013 Sep 2. doi: 10.1371/journal.pone.0068350
PMCID:
PMC3759607
AbstractArticlePDF–815K
17.
Comparative genome analysis of central nitrogen metabolism and its control by GlnR in the class Bacilli
Tom Groot Kormelink, Eric Koenders, Yanick Hagemeijer, Lex Overmars, Roland J Siezen, Willem M de Vos, Christof Francke
BMC Genomics. 2012; 13: 191. Published online 2012 May 18. doi: 10.1186/1471-2164-13-191
PMCID:
PMC3412718
AbstractArticlePDF–794K
18.
Identification of Surprisingly Diverse Type IV Pili, across a Broad Range of Gram-Positive Bacteria
Saheed Imam, Zhongqiang Chen, David S. Roos, Mechthild Pohlschröder
PLoS One. 2011; 6(12): e28919. Published online 2011 Dec 21. doi: 10.1371/journal.pone.0028919
PMCID:
PMC3244431
AbstractArticlePDF–854K
19.
Accurate and fast estimation of taxonomic profiles from metagenomic shotgun sequences
Bo Liu, Theodore Gibbons, Mohammad Ghodsi, Todd Treangen, Mihai Pop
BMC Genomics. 2011; 12(Suppl 2): S4. Published online 2011 Jul 27. doi: 10.1186/1471-2164-12-S2-S4
PMCID:
PMC3194235
AbstractArticlePDF–1.7M
20.
TIR domain-containing adaptor SARM is a late addition to the ongoing microbe–host dialog
Qing Zhang, Christian M. Zmasek, Xiaohui Cai, Adam Godzik
Dev Comp Immunol. Author manuscript; available in PMC 2012 Apr 1.
Published in final edited form as: Dev Comp Immunol. 2011 Apr; 35(4): 461–468. Published online 2010 Nov 24. doi: 10.1016/j.dci.2010.11.013
PMCID:
PMC3085110
AbstractArticlePDF–138K

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