Phylogenomics and the evolution of hemipteroid insects

Mitochondrial phylogenomics of Hemiptera reveals adaptive innovations driving the diversification of true bugs

(2017) Hu Li et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

A simple method to control over-alignment in the MAFFT multiple sequence alignment program

(2016) Kazutaka Katoh et al.   BIOINFORMATICS

Computing the Internode Certainty and Related Measures from Partial Gene Trees

(2016) Kassian Kobert et al.   MOLECULAR BIOLOGY AND EVOLUTION

ExaML version 3: a tool for phylogenomic analyses on supercomputers

(2015) Alexey M. Kozlov et al.   BIOINFORMATICS

A novel mitochondrial genome architecture in thrips (Insecta: Thysanoptera): extreme size asymmetry among chromosomes and possible recent control region duplication

(2015) Aaron M. Dickey et al.   BMC GENOMICS

Science in Congress: Deceptive statistics--Response

(2015) A. A. Rosenberg et al.   SCIENCE

SOAPdenovo-Trans: de novo transcriptome assembly with short RNA-Seq reads

(2014) Y. Xie et al.   BIOINFORMATICS

Selecting optimal partitioning schemes for phylogenomic datasets

(2014) Robert Lanfear et al.   BMC EVOLUTIONARY BIOLOGY

Phylogenomics resolves the timing and pattern of insect evolution

(2014) B. Misof et al.   SCIENCE

Insect Mitochondrial Genomics: Implications for Evolution and Phylogeny

(2013) Stephen L. Cameron   Annual Review of Entomology

The cephalic morphology of the Gondwanan key taxon Hackeriella (Coleorrhyncha, Hemiptera)

(2013) Rico Spangenberg et al.   ARTHROPOD STRUCTURE & DEVELOPMENT

Selecting informative subsets of sparse supermatrices increases the chance to find correct trees

(2013) Bernhard Misof et al.   BMC BIOINFORMATICS

Evolution of attachment structures in the highly diverse Acercaria (Hexapoda)

(2013) Katrin Friedemann et al.   CLADISTICS

Changes in base composition bias of nuclear and mitochondrial genes in lice (Insecta: Psocodea)

(2013) Kazunori Yoshizawa et al.   GENETICA

Decisive Data Sets in Phylogenomics: Lessons from Studies on the Phylogenetic Relationships of Primarily Wingless Insects

(2013) Emiliano Dell’Ampio et al.   MOLECULAR BIOLOGY AND EVOLUTION

Inferring ancient divergences requires genes with strong phylogenetic signals

(2013) Leonidas Salichos et al.   NATURE

Pfam: the protein families database

(2013) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

The Complete Mitochondrial Genome and Novel Gene Arrangement of the Unique-Headed Bug Stenopirates sp. (Hemiptera: Enicocephalidae)

(2012) Hu Li et al.   PLoS One

Mitochondrial genome deletions and minicircles are common in lice (Insecta: Phthiraptera)

(2011) Stephen L Cameron et al.   BMC GENOMICS

Best Practices for Justifying Fossil Calibrations

(2011) James F. Parham et al.   SYSTEMATIC BIOLOGY

Parametric and non-parametric masking of randomness in sequence alignments can be improved and leads to better resolved trees

(2010) Patrick Kück et al.   Frontiers in Zoology

How Many Bootstrap Replicates Are Necessary?

(2010) Nicholas D. Pattengale et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Phylogenetic relationships among insect orders based on three nuclear protein-coding gene sequences

(2010) Keisuke Ishiwata et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

A Monte Carlo Approach Successfully Identifies Randomness in Multiple Sequence Alignments : A More Objective Means of Data Exclusion

(2009) Bernhard Misof et al.   SYSTEMATIC BIOLOGY