America's red gold: multiple lineages of cultivated cochineal in Mexico

Sequencing pools of individuals — mining genome-wide polymorphism data without big funding

(2014) Christian Schlötterer et al.   NATURE REVIEWS GENETICS

Informed and automated k-mer size selection for genome assembly

(2013) R. Chikhi et al.   BIOINFORMATICS

MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0

(2013) Koichiro Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

Assembler for de novo assembly of large genomes

(2013) Te-Chin Chu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

(2013) Keith R Bradnam et al.   GigaScience

A high-performance computing toolset for relatedness and principal component analysis of SNP data

(2012) X. Zheng et al.   BIOINFORMATICS

PANDAseq: paired-end assembler for illumina sequences

(2012) Andre P Masella et al.   BMC BIOINFORMATICS

Ultrafast clustering algorithms for metagenomic sequence analysis

(2012) W. Li et al.   BRIEFINGS IN BIOINFORMATICS

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

A second-generation assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence

(2012) T. T. Hu et al.   GENOME RESEARCH

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

PoPoolation2: identifying differentiation between populations using sequencing of pooled DNA samples (Pool-Seq)

(2011) R. Kofler et al.   BIOINFORMATICS

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Integrative analysis of environmental sequences using MEGAN4

(2011) D. H. Huson et al.   GENOME RESEARCH

Distribution and Habitat in Mexico of Dactylopius Costa (Hemiptera: Dactylopiidae) and their Cacti Hosts (Cactaceae: Opuntioideae)

(2011) CK Chávez-Moreno et al.   NEOTROPICAL ENTOMOLOGY

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Molecular Phylogeny of the Genus Dactylopius (Hemiptera: Dactylopiidae) and Identification of the Symbiotic Bacteria

(2010) S. T. Ramírez-Puebla et al.   ENVIRONMENTAL ENTOMOLOGY

Genome Sequence of the Pea Aphid Acyrthosiphon pisum

(2010)   PLOS BIOLOGY

The Opuntia (Cactaceae) and Dactylopius (Hemiptera: Dactylopiidae) in Mexico: a historical perspective of use, interaction and distribution

(2009) C. K. Chávez-Moreno et al.   BIODIVERSITY AND CONSERVATION

TagDust--a program to eliminate artifacts from next generation sequencing data

(2009) T. Lassmann et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Distinguishing suitable biotypes of Dactylopius tomentosus (Hemiptera: Dactylopiidae) for biological control of Cylindropuntia fulgida var. fulgida (Caryophyllales: Cactaceae) in South Africa

(2009) C.W. Mathenge et al.   BULLETIN OF ENTOMOLOGICAL RESEARCH

ABySS: A parallel assembler for short read sequence data

(2009) J. T. Simpson et al.   GENOME RESEARCH

Introgression as a likely cause of mtDNA paraphyly in two allopatric skippers (Lepidoptera: Hesperiidae)

(2009) E V Zakharov et al.   HEREDITY

SPECIALIZATION AND GEOGRAPHIC ISOLATION AMONGWOLBACHIASYMBIONTS FROM ANTS AND LYCAENID BUTTERFLIES

(2008) Jacob A. Russell et al.   EVOLUTION

Genome Evolution of Wolbachia Strain wPip from the Culex pipiens Group

(2008) L. Klasson et al.   MOLECULAR BIOLOGY AND EVOLUTION

Assessing the gene space in draft genomes

(2008) Genis Parra et al.   NUCLEIC ACIDS RESEARCH