Detecting unknown sequences with DNA microarrays: explorative probe design strategies

High taxonomic level fingerprint of the human intestinal microbiota by Ligase Detection Reaction - Universal Array approach

(2012) Marco Candela et al.   BMC MICROBIOLOGY

Microarray Analysis and Barcoded Pyrosequencing Provide Consistent Microbial Profiles Depending on the Source of Human Intestinal Samples

(2011) Bartholomeus van den Bogert et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

HiSpOD: probe design for functional DNA microarrays

(2011) Eric Dugat-Bony et al.   BIOINFORMATICS

Development and applications of functional gene microarrays in the analysis of the functional diversity, composition, and structure of microbial communities

(2011) Zhili He et al.  

Investigation of Microbial Populations in the Extremely Metal-Contaminated Coeur d'Alene River Sediments

(2011) Gurdeep Rastogi et al.   MICROBIAL ECOLOGY

Accessing the Soil Metagenome for Studies of Microbial Diversity

(2010) Tom O. Delmont et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Detecting variants with Metabolic Design, a new software tool to design probes for explorative functional DNA microarray development

(2010) Sébastien Terrat et al.   BMC BIOINFORMATICS

Analysis of sulfur-related transcription by Roseobacter communities using a taxon-specific functional gene microarray

(2010) Johanna M. Rinta-Kanto et al.   ENVIRONMENTAL MICROBIOLOGY

PhyloChip hybridization uncovered an enormous bacterial diversity in the rhizosphere of different potato cultivars: many common and few cultivar-dependent taxa

(2010) Nicole Weinert et al.   FEMS MICROBIOLOGY ECOLOGY

A molecular toolbox to estimate the number and diversity of Variovorax in the environment: application in soils treated with the phenylurea herbicide linuron

(2010) Karolien Bers et al.   FEMS MICROBIOLOGY ECOLOGY

Dysbiosis of fecal microbiota in Crohnʼs disease patients as revealed by a custom phylogenetic microarray

(2010) Seungha Kang et al.   INFLAMMATORY BOWEL DISEASES

GeoChip 3.0 as a high-throughput tool for analyzing microbial community composition, structure and functional activity

(2010) Zhili He et al.   ISME Journal

Bacterial Diversity of Weathered Terrestrial Icelandic Volcanic Glasses

(2010) Laura C. Kelly et al.   MICROBIAL ECOLOGY

Microbial and Mineralogical Characterizations of Soils Collected from the Deep Biosphere of the Former Homestake Gold Mine, South Dakota

(2010) Gurdeep Rastogi et al.   MICROBIAL ECOLOGY

Computational solutions to large-scale data management and analysis

(2010) Eric E. Schadt et al.   NATURE REVIEWS GENETICS

DDBJ progress report

(2010) E. Kaminuma et al.   NUCLEIC ACIDS RESEARCH

The European Nucleotide Archive

(2010) R. Leinonen et al.   NUCLEIC ACIDS RESEARCH

GenBank

(2010) D. A. Benson et al.   NUCLEIC ACIDS RESEARCH

In an early branching metazoan, bacterial colonization of the embryo is controlled by maternal antimicrobial peptides

(2010) S. Fraune et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A phylogenetic microarray targeting 16S rRNA genes from the bacterial division Acidobacteria reveals a lineage-specific distribution in a soil clay fraction

(2010) Mark R. Liles et al.   SOIL BIOLOGY & BIOCHEMISTRY

Comparing microarrays and next-generation sequencing technologies for microbial ecology research

(2010) Seong Woon Roh et al.   TRENDS IN BIOTECHNOLOGY

High-Throughput Quantitative Analysis of the Human Intestinal Microbiota with a Phylogenetic Microarray

(2009) O. Paliy et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Bacterial Diversity Analysis of Huanglongbing Pathogen-Infected Citrus, Using PhyloChip Arrays and 16S rRNA Gene Clone Library Sequencing

(2009) U. S. Sagaram et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Prokaryotic Community Structure and Sulfate Reducer Activity in Water from High-Temperature Oil Reservoirs with and without Nitrate Treatment

(2009) A. Gittel et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Achievements and new knowledge unraveled by metagenomic approaches

(2009) Carola Simon et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Development and experimental validation of anifHoligonucleotide microarray to study diazotrophic communities in a glacier forefield

(2009) Laurence Duc et al.   ENVIRONMENTAL MICROBIOLOGY

Development and application of the human intestinal tract chip, a phylogenetic microarray: analysis of universally conserved phylotypes in the abundant microbiota of young and elderly adults

(2009) Mirjana Rajilić-Stojanović et al.   ENVIRONMENTAL MICROBIOLOGY

Despite strong seasonal responses, soil microbial consortia are more resilient to long-term changes in rainfall than overlying grassland

(2009) Karelyn Cruz-Martínez et al.   ISME Journal

Design and development of the ANAEROCHIP microarray for investigation of methanogenic communities

(2009) Ingrid H. Franke-Whittle et al.   JOURNAL OF MICROBIOLOGICAL METHODS

Microbial Diversity in Uranium Mining-Impacted Soils as Revealed by High-Density 16S Microarray and Clone Library

(2009) Gurdeep Rastogi et al.   MICROBIAL ECOLOGY

Rhizosphere bacterial communities associated with disease suppressiveness stages of take-all decline in wheat monoculture

(2009) H. Sanguin et al.   NEW PHYTOLOGIST

An evaluation of custom microarray applications: the oligonucleotide design challenge

(2009) Sophie Lemoine et al.   NUCLEIC ACIDS RESEARCH

iCODEHOP: a new interactive program for designing COnsensus-DEgenerate Hybrid Oligonucleotide Primers from multiply aligned protein sequences

(2009) R. Boyce et al.   NUCLEIC ACIDS RESEARCH

ORMA: a tool for identification of species-specific variations in 16S rRNA gene and oligonucleotides design

(2009) Marco Severgnini et al.   NUCLEIC ACIDS RESEARCH

Avian Incubation Inhibits Growth and Diversification of Bacterial Assemblages on Eggs

(2009) Matthew D. Shawkey et al.   PLoS One

Comparative Analysis of Pyrosequencing and a Phylogenetic Microarray for Exploring Microbial Community Structures in the Human Distal Intestine

(2009) Marcus J. Claesson et al.   PLoS One

Development and application of functional gene arrays for microbial community analysis

(2009) Z.L. HE et al.   TRANSACTIONS OF NONFERROUS METALS SOCIETY OF CHINA

Development of a 16S rRNA gene-based prototype microarray for the detection of selected actinomycetes genera

(2008) Martina Kyselková et al.   ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY

Novel Microarray Design Strategy To Study Complex Bacterial Communities

(2008) A. Huyghe et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Accumulation of trans C18:1 Fatty Acids in the Rumen after Dietary Algal Supplementation Is Associated with Changes in the Butyrivibrio Community

(2008) C. Boeckaert et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

16S rRNA gene-based phylogenetic microarray for simultaneous identification of members of the genusBurkholderia

(2008) Susan Schönmann et al.   ENVIRONMENTAL MICROBIOLOGY

The rational exploration of microbial diversity

(2008) Christopher Quince et al.   ISME Journal

Selective progressive response of soil microbial community to wild oat roots

(2008) Kristen M DeAngelis et al.   ISME Journal

Environmental microarray analyses of Antarctic soil microbial communities

(2008) Etienne Yergeau et al.   ISME Journal

Improved group-specific PCR primers for denaturing gradient gel electrophoresis analysis of the genetic diversity of complex microbial communities

(2008) Martin Mühling et al.   ISME Journal

Evidence of Multiple Treponema Phylotypes Involved in Bovine Digital Dermatitis as Shown by 16S rRNA Gene Analysis and Fluorescence In Situ Hybridization

(2008) K. Klitgaard et al.   JOURNAL OF CLINICAL MICROBIOLOGY

Model-based probe set optimization for high-performance microarrays

(2008) G. G. Leparc et al.   NUCLEIC ACIDS RESEARCH

Specificity of DNA microarray hybridization: characterization, effectors and approaches for data correction

(2008) H. Koltai et al.   NUCLEIC ACIDS RESEARCH

Petabyte-scale innovations at the European Nucleotide Archive

(2008) G. Cochrane et al.   NUCLEIC ACIDS RESEARCH

The Ribosomal Database Project: improved alignments and new tools for rRNA analysis

(2008) J. R. Cole et al.   NUCLEIC ACIDS RESEARCH