A phylogenomic analysis of Culicomorpha (Diptera) resolves the relationships among the eight constituent families

TNT version 1.5, including a full implementation of phylogenetic morphometrics

(2016) Pablo A. Goloboff et al.   CLADISTICS

Phylotranscriptomics resolves ancient divergences in the Lepidoptera

(2016) ADAM L. BAZINET et al.   SYSTEMATIC ENTOMOLOGY

Molecular phylogeny of the megadiverse insect infraorder Bibionomorphasensu lato(Diptera)

(2016) Jan Ševčík et al.   PeerJ

Plesiomorphic character states cause systematic errors in molecular phylogenetic analyses: a simulation study

(2015) Patrick Kück et al.   CLADISTICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Selecting optimal partitioning schemes for phylogenomic datasets

(2014) Robert Lanfear et al.   BMC EVOLUTIONARY BIOLOGY

FASconCAT-G: extensive functions for multiple sequence alignment preparations concerning phylogenetic studies

(2014) Patrick Kück et al.   Frontiers in Zoology

Compositional Biases among Synonymous Substitutions Cause Conflict between Gene and Protein Trees for Plastid Origins

(2014) Blaise Li et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylogenomics resolves the timing and pattern of insect evolution

(2014) B. Misof et al.   SCIENCE

When DNA barcoding and morphology mesh: Ceratopogonidae diversity in Finnmark, Norway

(2014) Elisabeth Stur et al.   ZooKeys

The Pupae of the Biting Midges of the World (Diptera: Ceratopogonidae), With a Generic Key and Analysis of the Phylogenetic Relationships Between Genera

(2014) ART BORKENT   ZOOTAXA

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

(2013) Bernhard Misof et al.   BMC BIOINFORMATICS

Phylotranscriptomics: Saturated Third Codon Positions Radically Influence the Estimation of Trees Based on Next-Gen Data

(2013) Jesse W. Breinholt et al.   Genome Biology and Evolution

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Insect phylogenomics: new insights on the relationships of lower neopteran orders (Polyneoptera)

(2013) HARALD LETSCH et al.   SYSTEMATIC ENTOMOLOGY

Genomic and Morphological Evidence Converge to Resolve the Enigma of Strepsiptera

(2012) Oliver Niehuis et al.   CURRENT BIOLOGY

A DNA Barcode Library for North American Ephemeroptera: Progress and Prospects

(2012) Jeffrey M. Webb et al.   PLoS One

The phylogenetic relationships among infraorders and superfamilies of Diptera based on morphological evidence

(2012) CHRISTINE L. LAMBKIN et al.   SYSTEMATIC ENTOMOLOGY

Random Addition Concatenation Analysis: A Novel Approach to the Exploration of Phylogenomic Signal Reveals Strong Agreement between Core and Shell Genomic Partitions in the Cyanobacteria

(2011) Apurva Narechania et al.   Genome Biology and Evolution

Episodic radiations in the fly tree of life

(2011) B. M. Wiegmann et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A dated molecular phylogeny for the Chironomidae (Diptera)

(2011) PETER S. CRANSTON et al.   SYSTEMATIC ENTOMOLOGY

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

OrthoDB: the hierarchical catalog of eukaryotic orthologs in 2011

(2010) Robert M. Waterhouse et al.   NUCLEIC ACIDS RESEARCH

When molecules and morphology concur: the ‘Gondwanan’ midges (Diptera: Chironomidae)

(2010) PETER S. CRANSTON et al.   SYSTEMATIC ENTOMOLOGY

Molecular phylogeny of the Calyptratae (Diptera: Cyclorrhapha) with an emphasis on the superfamily Oestroidea and the position of Mystacinobiidae and McAlpine's fly

(2010) SUJATHA NARAYANAN KUTTY et al.   SYSTEMATIC ENTOMOLOGY

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Phylogenetic analysis and temporal diversification of mosquitoes (Diptera: Culicidae) based on nuclear genes and morphology

(2009) Kyanne R Reidenbach et al.   BMC EVOLUTIONARY BIOLOGY

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

Phylogenetics and temporal diversification of the earliest true flies (Insecta: Diptera) based on multiple nuclear genes

(2008) MATTHEW A. BERTONE et al.   SYSTEMATIC ENTOMOLOGY