Transcriptome Sequence and Plasmid Copy Number Analysis of the Brewery Isolate Pediococcus claussenii ATCC BAA-344T during Growth in Beer

Comparative Analysis of Lactobacillus plantarum WCFS1 Transcriptomes by Using DNA Microarray and Next-Generation Sequencing Technologies

(2012) Milkha M. Leimena et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

RT-qPCR analysis of putative beer-spoilage gene expression during growth of Lactobacillus brevis BSO 464 and Pediococcus claussenii ATCC BAA-344T in beer

(2012) Jordyn Bergsveinson et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Complete Genome Sequence of the Beer Spoilage Organism Pediococcus claussenii ATCC BAA-344T

(2012) V. Pittet et al.   JOURNAL OF BACTERIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Decoding in the Absence of a Codon by tmRNA and SmpB in the Ribosome

(2012) C. Neubauer et al.   SCIENCE

Increased Transfer of a Multidrug Resistance Plasmid in Escherichia coli Biofilms at the Air-Liquid Interface

(2011) Jaroslaw E. Król et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data

(2011) T. Carver et al.   BIOINFORMATICS

Deep sequencing-based analysis of the anaerobic stimulon in Neisseria gonorrhoeae

(2011) Vincent M Isabella et al.   BMC GENOMICS

Quantitative RNA-seq analysis of the Campylobacter jejuni transcriptome

(2011) R. R. Chaudhuri et al.   MICROBIOLOGY-SGM

REVIGO Summarizes and Visualizes Long Lists of Gene Ontology Terms

(2011) Fran Supek et al.   PLoS One

Rnnotator: an automated de novo transcriptome assembly pipeline from stranded RNA-Seq reads

(2010) Jeffrey Martin et al.   BMC GENOMICS

Rfam: Wikipedia, clans and the "decimal" release

(2010) P. P. Gardner et al.   NUCLEIC ACIDS RESEARCH

Serious Overestimation in Quantitative PCR by Circular (Supercoiled) Plasmid Standard: Microalgal pcna as the Model Gene

(2010) Yubo Hou et al.   PLoS One

Gene ontology analysis for RNA-seq: accounting for selection bias

(2010) Matthew D Young et al.   GENOME BIOLOGY

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Mechanisms of Hop Inhibition Include the Transmembrane Redox Reaction

(2009) J. Behr et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Measuring differential gene expression by short read sequencing: quantitative comparison to 2-channel gene expression microarrays

(2009) Joshua S Bloom et al.   BMC GENOMICS

Broth and agar hop-gradient plates used to evaluate the beer-spoilage potential of Lactobacillus and Pediococcus isolates

(2009) M. Haakensen et al.   INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY

Mechanisms of Hop Inhibition: Hop Ionophores

(2009) Jürgen Behr et al.   JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY

Biology oftrans-Translation

(2008) Kenneth C. Keiler   Annual Review of Microbiology

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS