The Mitochondrial Genomes of a Myxozoan Genus Kudoa Are Extremely Divergent in Metazoa

Error, signal, and the placement of Ctenophora sister to all other animals

(2015) Nathan V. Whelan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Electron Microscopic Study of Kudoa septempunctata Infecting Paralichthys olivaceus (Olive Flounder)

(2015) Takahiro Ohnishi et al.   JAPANESE JOURNAL OF INFECTIOUS DISEASES

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

Efficient de novo assembly of highly heterozygous genomes from whole-genome shotgun short reads

(2014) Rei Kajitani et al.   GENOME RESEARCH

New phylogenomic and comparative analyses provide corroborating evidence that Myxozoa is Cnidaria

(2014) Jin-Mei Feng et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

The ctenophore genome and the evolutionary origins of neural systems

(2014) Leonid L. Moroz et al.   NATURE

Highly divergent mitochondrion-related organelles in anaerobic parasitic protozoa

(2013) Takashi Makiuchi et al.   BIOCHIMIE

Cnidarian phylogenetic relationships as revealed by mitogenomics

(2013) Ehsan Kayal et al.   BMC EVOLUTIONARY BIOLOGY

Pfam: the protein families database

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

Agent of Whirling Disease Meets Orphan Worm: Phylogenomic Analyses Firmly Place Myxozoa in Cnidaria

(2013) Maximilian P. Nesnidal et al.   PLoS One

Global Diversity of the Placozoa

(2013) Michael Eitel et al.   PLoS One

Mapping single molecule sequencing reads using basic local alignment with successive refinement (BLASR): application and theory

(2012) Mark J Chaisson et al.   BMC BIOINFORMATICS

Identification of Kudoa septempunctata as the Causative Agent of Novel Food Poisoning Outbreaks in Japan by Consumption of Paralichthys olivaceus in Raw Fish

(2012) T. Kawai et al.   CLINICAL INFECTIOUS DISEASES

Biochemistry and Evolution of Anaerobic Energy Metabolism in Eukaryotes

(2012) M. Muller et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

RAPSearch2: a fast and memory-efficient protein similarity search tool for next-generation sequencing data

(2011) Y. Zhao et al.   BIOINFORMATICS

Extreme mitochondrial evolution in the ctenophoreMnemiopsis leidyi: Insight from mtDNA and the nuclear genome

(2011) Walker Pett et al.   Mitochondrial DNA

Phylogenetic Relationships within the Opisthokonta Based on Phylogenomic Analyses of Conserved Single-Copy Protein Domains

(2011) G. Torruella et al.   MOLECULAR BIOLOGY AND EVOLUTION

Rapid evolution of the compact and unusual mitochondrial genome in the ctenophore, Pleurobrachia bachei

(2011) Andrea B. Kohn et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

PoPoolation: A Toolbox for Population Genetic Analysis of Next Generation Sequencing Data from Pooled Individuals

(2011) Robert Kofler et al.   PLoS One

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

Interactive microbial genome visualization with GView

(2010) Aaron Petkau et al.   BIOINFORMATICS

The Phylogenetic Position of Myxozoa: Exploring Conflicting Signals in Phylogenomic and Ribosomal Data Sets

(2010) N. M. Evans et al.   MOLECULAR BIOLOGY AND EVOLUTION

Rfam: Wikipedia, clans and the "decimal" release

(2010) P. P. Gardner et al.   NUCLEIC ACIDS RESEARCH

Mitochondrial Evolution and Functions in Malaria Parasites

(2009) Akhil B. Vaidya et al.   Annual Review of Microbiology

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez 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

phyloXML: XML for evolutionary biology and comparative genomics

(2009) Mira V Han et al.   BMC BIOINFORMATICS

Complete mitochondrial genome sequences of the three pelagic chaetognaths Sagitta nagae, Sagitta decipiens and Sagitta enflata

(2009) Hiroomi Miyamoto et al.   Comparative Biochemistry and Physiology D-Genomics & Proteomics

ABySS: A parallel assembler for short read sequence data

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

MtZoa: A general mitochondrial amino acid substitutions model for animal evolutionary studies

(2009) Omar Rota-Stabelli et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

DNAPlotter: circular and linear interactive genome visualization

(2008) T. Carver et al.   BIOINFORMATICS

Recent developments in the MAFFT multiple sequence alignment program

(2008) K. Katoh et al.   BRIEFINGS IN BIOINFORMATICS

An Improved General Amino Acid Replacement Matrix

(2008) S. Q. Le et al.   MOLECULAR BIOLOGY AND EVOLUTION