[HTML][HTML] The RAST Server: rapid annotations using subsystems technology

RK Aziz, D Bartels, AA Best, M DeJongh, T Disz… - BMC genomics, 2008 - Springer
Background The number of prokaryotic genome sequences becoming available is growing
steadily and is growing faster than our ability to accurately annotate them. Description We …

MicroScope: a platform for microbial genome annotation and comparative genomics

D Vallenet, S Engelen, D Mornico, S Cruveiller… - Database, 2009 - academic.oup.com
The initial outcome of genome sequencing is the creation of long text strings written in a four
letter alphabet. The role of in silico sequence analysis is to assist biologists in the act of …

Translational informatics for human microbiota: data resources, models and applications

K Shen, AU Din, B Sinha, Y Zhou… - Briefings in …, 2023 - academic.oup.com
With the rapid development of human intestinal microbiology and diverse microbiome-
related studies and investigations, a large amount of data have been generated and …

[HTML][HTML] Annotation, comparison and databases for hundreds of bacterial genomes

C Médigue, I Moszer - Research in microbiology, 2007 - Elsevier
The multitude of bacterial genome sequences being determined has opened up a new field
of research, that of comparative genomics. One role of bioinformatics is to assist biologists in …

[HTML][HTML] The Complete Genome of Propionibacterium freudenreichii CIRM-BIA1T, a Hardy Actinobacterium with Food and Probiotic Applications

H Falentin, SM Deutsch, G Jan, V Loux, A Thierry… - PloS one, 2010 - journals.plos.org
Background Propionibacterium freudenreichii is essential as a ripening culture in Swiss-type
cheeses and is also considered for its probiotic use. This species exhibits slow growth, low …

[HTML][HTML] Complete genome sequence of the fish pathogen Flavobacterium psychrophilum

E Duchaud, M Boussaha, V Loux, JF Bernardet… - Nature …, 2007 - nature.com
We report here the complete genome sequence of the virulent strain JIP02/86 (ATCC
49511) of Flavobacterium psychrophilum, a widely distributed pathogen of wild and cultured …

The genome sequence of the psychrophilic archaeon, Methanococcoides burtonii: the role of genome evolution in cold adaptation

MA Allen, FM Lauro, TJ Williams, D Burg… - The ISME …, 2009 - academic.oup.com
Psychrophilic archaea are abundant and perform critical roles throughout the Earth's
expansive cold biosphere. Here we report the first complete genome sequence for a …

Complete Genome Sequence of the Probiotic Lactobacillus casei Strain BL23

A Mazé, G Boël, M Zúniga, A Bourand… - Journal of …, 2010 - Am Soc Microbiol
Complete Genome Sequence of the Probiotic Lactobacillus casei Strain BL23 | Journal of
Bacteriology CLOSE This Journal Anywhere Enter words / phrases / DOI / ISBN / keywords …

ONTOFUSION: Ontology-based integration of genomic and clinical databases

D Pérez-Rey, V Maojo, M García-Remesal… - Computers in biology …, 2006 - Elsevier
ONTOFUSION is an ontology-based system designed for biomedical database integration. It
is based on two processes: mapping and unification. Mapping is a semi-automated process …

Surface proteins of Propionibacterium freudenreichii are involved in its anti-inflammatory properties

C Le Maréchal, V Péton, C Plé, C Vroland, J Jardin… - Journal of …, 2015 - Elsevier
Propionibacterium freudenreichii is a beneficial bacterium used in the food industry as a
vitamin producer, as a bio-preservative, as a cheese ripening starter and as a probiotic. It is …