A Toolkit for bulk PCR-based marker design from next-generation sequence data: application for development of a framework linkage map in bulb onion (Allium cepa L.)

AlliumMap-A comparative genomics resource for cultivated Allium vegetables

(2012) John McCallum et al.   BMC GENOMICS

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

Normalization of genomic DNA using duplex-specific nuclease

(2010) Irina Shagina et al.   BIOTECHNIQUES

SNP-RFLPing 2: an updated and integrated PCR-RFLP tool for SNP genotyping

(2010) Hsueh-Wei Chang et al.   BMC BIOINFORMATICS

A toolkit for rapid gene mapping in the nematode Caenorhabditis briggsae

(2010) Daniel C Koboldt et al.   BMC GENOMICS

In Vitro vs In Silico Detected SNPs for the Development of a Genotyping Array: What Can We Learn from a Non-Model Species?

(2010) Camille Lepoittevin et al.   PLoS One

Crop genome sequencing: lessons and rationales

(2010) Catherine Feuillet et al.   TRENDS IN PLANT SCIENCE

Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences

(2010) Jeremy Goecks et al.   GENOME BIOLOGY

CMap 1.01: a comparative mapping application for the Internet

(2009) K. Youens-Clark et al.   BIOINFORMATICS

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS

High-resolution melting analysis (HRMA): a highly sensitive inexpensive genotyping alternative for population studies

(2009) B. L. SMITH et al.   Molecular Ecology Resources

Discovering genetic polymorphisms in next-generation sequencing data

(2009) Michael Imelfort et al.   PLANT BIOTECHNOLOGY JOURNAL

PRIMEGENS-v2: genome-wide primer design for analyzing DNA methylation patterns of CpG islands

(2008) G. P. Srivastava et al.   BIOINFORMATICS

PatMaN: rapid alignment of short sequences to large databases

(2008) Kay Prüfer et al.   BIOINFORMATICS

Pilot sequencing of onion genomic DNA reveals fragments of transposable elements, low gene densities, and significant gene enrichment after methyl filtration

(2008) Jernej Jakše et al.   MOLECULAR GENETICS AND GENOMICS