Classification and phylogeny of hydrogenases

PM Vignais, B Billoud, J Meyer - FEMS microbiology reviews, 2001 - academic.oup.com
Hydrogenases (H2ases) catalyze the reversible oxidation of molecular hydrogen and play a
central role in microbial energy metabolism. Most of these enzymes are found in Archaea …

A genomic view of alternative splicing

B Modrek, C Lee - Nature genetics, 2002 - nature.com
Recent genome-wide analyses of alternative splicing indicate that 40–60% of human genes
have alternative splice forms, suggesting that alternative splicing is one of the most …

FoodOn: a harmonized food ontology to increase global food traceability, quality control and data integration

DM Dooley, EJ Griffiths, GS Gosal, PL Buttigieg… - npj Science of …, 2018 - nature.com
The construction of high capacity data sharing networks to support increasing government
and commercial data exchange has highlighted a key roadblock: the content of existing …

Changes in the gut microbiome and fermentation products concurrent with enhanced longevity in acarbose-treated mice

BJ Smith, RA Miller, AC Ericsson, DC Harrison… - BMC microbiology, 2019 - Springer
Background Treatment with the α-glucosidase inhibitor acarbose increases median lifespan
by approximately 20% in male mice and 5% in females. This longevity extension differs from …

The protein data bank

HM Berman, J Westbrook, Z Feng… - Nucleic acids …, 2000 - academic.oup.com
Abstract The Protein Data Bank (PDB; http://www. rcsb. org/pdb/) is the single worldwide
archive of structural data of biological macromolecules. This paper describes the goals of …

Naive Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy

Q Wang, GM Garrity, JM Tiedje… - Applied and …, 2007 - Am Soc Microbiol
ABSTRACT The Ribosomal Database Project (RDP) Classifier, a naïve Bayesian
classifier, can rapidly and accurately classify bacterial 16S rRNA sequences into the new …

DAVID: database for annotation, visualization, and integrated discovery

G Dennis, BT Sherman, DA Hosack, J Yang, W Gao… - Genome biology, 2003 - Springer
The distributed nature of biological knowledge poses a major challenge to the interpretation
of genome-scale datasets, including those derived from microarray and proteomic studies …

The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs

JJ Cannone, S Subramanian, MN Schnare… - BMC …, 2002 - Springer
Background Comparative analysis of RNA sequences is the basis for the detailed and
accurate predictions of RNA structure and the determination of phylogenetic relationships for …

IntAct: an open source molecular interaction database

H Hermjakob, L Montecchi‐Palazzi… - Nucleic acids …, 2004 - academic.oup.com
IntAct provides an open source database and toolkit for the storage, presentation and
analysis of protein interactions. The web interface provides both textual and graphical …

The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis

JR Cole, B Chai, RJ Farris, Q Wang… - Nucleic acids …, 2005 - academic.oup.com
Abstract The Ribosomal Database Project (RDP-II) provides the research community with
aligned and annotated rRNA gene sequences, along with analysis services and a …