The genome sequence of the colonial chordate, Botryllus schlosseri

Identification of a Colonial Chordate Histocompatibility Gene

(2013) A. Voskoboynik et al.   SCIENCE

Repeated, Long-Term Cycling of Putative Stem Cells between Niches in a Basal Chordate

(2012) Yuval Rinkevich et al.   DEVELOPMENTAL CELL

Identification of a rudimentary neural crest in a non-vertebrate chordate

(2012) Philip Barron Abitua et al.   NATURE

Gene Expression Commons: An Open Platform for Absolute Gene Expression Profiling

(2012) Jun Seita et al.   PLoS One

The enigmatic mitochondrial genome of Rhabdopleura compacta(Pterobranchia) reveals insights into selection of an efficient tRNA system and supports monophyly of Ambulacraria

(2011) Marleen Perseke et al.   BMC EVOLUTIONARY BIOLOGY

Computational methods for Gene Orthology inference

(2011) D. M. Kristensen et al.   BRIEFINGS IN BIOINFORMATICS

Evolutionary crossroads in developmental biology: the tunicates

(2011) P. Lemaire   DEVELOPMENT

GAGE: A critical evaluation of genome assemblies and assembly algorithms

(2011) S. L. Salzberg et al.   GENOME RESEARCH

A thymus candidate in lampreys

(2011) Baubak Bajoghli et al.   NATURE

Using the Acropora digitifera genome to understand coral responses to environmental change

(2011) Chuya Shinzato et al.   NATURE

The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line

(2011) Xun Xu et al.   NATURE BIOTECHNOLOGY

Mechanisms of disease: hypertrophic cardiomyopathy

(2011) Norbert Frey et al.   Nature Reviews Cardiology

MitoZoa 2.0: a database resource and search tools for comparative and evolutionary analyses of mitochondrial genomes in Metazoa

(2011) Paolo D'Onorio de Meo et al.   NUCLEIC ACIDS RESEARCH

Repetitive Elements May Comprise Over Two-Thirds of the Human Genome

(2011) A. P. Jason de Koning et al.   PLoS Genetics

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Gene enrichment profiles reveal T-cell development, differentiation, and lineage-specific transcription factors including ZBTB25 as a novel NF-AT repressor

(2010) Y. Benita et al.   BLOOD

The Amphimedon queenslandica genome and the evolution of animal complexity

(2010) Mansi Srivastava et al.   NATURE

Whole-genome molecular haplotyping of single cells

(2010) H Christina Fan et al.   NATURE BIOTECHNOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Expression and Transcriptional Regulation of Individual Pregnancy-specific Glycoprotein Genes in Differentiating Trophoblast Cells

(2010) S. Camolotto et al.   PLACENTA

Plasticity of Animal Genome Architecture Unmasked by Rapid Evolution of a Pelagic Tunicate

(2010) F. Denoeud et al.   SCIENCE

PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating

(2009) Nicolas Lartillot 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

An updated 18S rRNA phylogeny of tunicates based on mixture and secondary structure models

(2009) Georgia Tsagkogeorga et al.   BMC EVOLUTIONARY BIOLOGY

Tunicate mitogenomics and phylogenetics: peculiarities of the Herdmania momus mitochondrial genome and support for the new chordate phylogeny

(2009) Tiratha Singh et al.   BMC GENOMICS

Phylogenomics Revives Traditional Views on Deep Animal Relationships

(2009) Hervé Philippe et al.   CURRENT BIOLOGY

Invertebrate Allorecognition: The Origins of Histocompatibility

(2009) Larry J. Dishaw et al.   CURRENT BIOLOGY

Hovering between death and life: Natural apoptosis and phagocytes in the blastogenetic cycle of the colonial ascidian Botryllus schlosseri

(2009) Francesca Cima et al.   DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY

Dual nature of the adaptive immune system in lampreys

(2009) Peng Guo et al.   NATURE

Origin and evolution of the adaptive immune system: genetic events and selective pressures

(2009) Martin F. Flajnik et al.   NATURE REVIEWS GENETICS

ToppGene Suite for gene list enrichment analysis and candidate gene prioritization

(2009) J. Chen et al.   NUCLEIC ACIDS RESEARCH

Using native and syntenically mapped cDNA alignments to improve de novo gene finding

(2008) Mario Stanke et al.   BIOINFORMATICS

Identification of the Endostyle as a Stem Cell Niche in a Colonial Chordate

(2008) Ayelet Voskoboynik et al.   Cell Stem Cell

A conserved role of the VEGF pathway in angiogenesis of an ectodermally-derived vasculature

(2008) Stefano Tiozzo et al.   DEVELOPMENTAL BIOLOGY

Vascular regeneration and angiogenic-like sprouting mechanism in a compound ascidian is similar to vertebrates

(2008) Fabio Gasparini et al.   EVOLUTION & DEVELOPMENT

Phylogeny of the families Pyuridae and Styelidae (Stolidobranchiata, Ascidiacea) inferred from mitochondrial and nuclear DNA sequences

(2008) R. Pérez-Portela et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION