Optimizing PCR primers targeting the bacterial 16S ribosomal RNA gene

Measuring the diversity of the human microbiota with targeted next-generation sequencing

(2016) Francesca Finotello et al.   BRIEFINGS IN BIOINFORMATICS

A multi-objective coordinate-exchange two-phase local search algorithm for multi-stratum experiments

(2016) Matteo Borrotti et al.   STATISTICS AND COMPUTING

Improved OTU-picking using long-read 16S rRNA gene amplicon sequencing and generic hierarchical clustering

(2015) Oscar Franzén et al.   Microbiome

DegePrime, a Program for Degenerate Primer Design for Broad-Taxonomic-Range PCR in Microbial Ecology Studies

(2014) Luisa W. Hugerth et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

A multiple-alignment based primer design algorithm for genetically highly variable DNA targets

(2013) Johanna Brodin et al.   BMC BIOINFORMATICS

Single-Nucleotide Polymorphisms and Other Mismatches Reduce Performance of Quantitative PCR Assays

(2013) S. Lefever et al.   CLINICAL CHEMISTRY

A coordinate-exchange two-phase local search algorithm for the D- and I-optimal designs of split-plot experiments

(2013) Francesco Sambo et al.   COMPUTATIONAL STATISTICS & DATA ANALYSIS

Database resources of the National Center for Biotechnology Information

(2013)   NUCLEIC ACIDS RESEARCH

Ribosomal Database Project: data and tools for high throughput rRNA analysis

(2013) James R. Cole et al.   NUCLEIC ACIDS RESEARCH

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Improving the anytime behavior of two-phase local search

(2011) Jérémie Dubois-Lacoste et al.   ANNALS OF MATHEMATICS AND ARTIFICIAL INTELLIGENCE

spyder, a new method for in silico design and assessment of 16S rRNA gene primers for molecular microbial ecology

(2011) Matthew C. Thomas et al.   FEMS MICROBIOLOGY LETTERS

Experimental and analytical tools for studying the human microbiome

(2011) Justin Kuczynski et al.   NATURE REVIEWS GENETICS

High-throughput DNA sequencing - concepts and limitations

(2010) Martin Kircher et al.   BIOESSAYS

Conservative Fragments in Bacterial 16S rRNA Genes and Primer Design for 16S Ribosomal DNA Amplicons in Metagenomic Studies

(2009) Yong Wang et al.   PLoS One

SeqAn An efficient, generic C++ library for sequence analysis

(2008) Andreas Döring et al.   BMC BIOINFORMATICS