Sexual and asexual development: two distinct programs producing the same tunicate

The eventful history of nonembryonic development in tunicates

(2020) Alexandre Alié et al.   JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION

Deeply conserved synteny resolves early events in vertebrate evolution

(2020) Oleg Simakov et al.   Nature Ecology & Evolution

Array programming with NumPy

(2020) Charles R. Harris et al.   NATURE

The emergent landscape of the mouse gut endoderm at single-cell resolution

(2019) Sonja Nowotschin et al.   NATURE

Comprehensive single-cell transcriptome lineages of a proto-vertebrate

(2019) Chen Cao et al.   NATURE

MorphoNet: an interactive online morphological browser to explore complex multi-scale data

(2019) Bruno Leggio et al.   Nature Communications

A conserved regulatory program initiates lateral plate mesoderm emergence across chordates

(2019) Karin D. Prummel et al.   Nature Communications

The Human Transcription Factors

(2018) Samuel A. Lambert et al.   CELL

Single-cell reconstruction of developmental trajectories during zebrafish embryogenesis

(2018) Jeffrey A. Farrell et al.   SCIENCE

Single-cell mapping of gene expression landscapes and lineage in the zebrafish embryo

(2018) Daniel E. Wagner et al.   SCIENCE

Sixty years of experimental studies on the blastogenesis of the colonial tunicate Botryllus schlosseri

(2018) Lucia Manni et al.   DEVELOPMENTAL BIOLOGY

Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris

(2018) et al.   NATURE

Complex mammalian-like haematopoietic system found in a colonial chordate

(2018) Benyamin Rosental et al.   NATURE

Amphioxus functional genomics and the origins of vertebrate gene regulation

(2018) Ferdinand Marlétaz et al.   NATURE

Constrained vertebrate evolution by pleiotropic genes

(2017) Haiyang Hu et al.   Nature Ecology & Evolution

GeneAnalytics: An Integrative Gene Set Analysis Tool for Next Generation Sequencing, RNAseq and Microarray Data

(2016) Shani Ben-Ari Fuchs et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY

High-precision morphology: bifocal 4D-microscopy enables the comparison of detailed cell lineages of two chordate species separated for more than 525 million years

(2015) Thomas Stach et al.   BMC BIOLOGY

Stem cells are units of natural selection for tissue formation, for germline development, and in cancer development

(2015) Irving L. Weissman   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Suboptimization of developmental enhancers

(2015) E. K. Farley et al.   SCIENCE

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Metamorphosis in solitary ascidians

(2014) Anthi Karaiskou et al.   GENESIS

Ontology for the Asexual Development and Anatomy of the Colonial Chordate Botryllus schlosseri

(2014) Lucia Manni et al.   PLoS One

Cell Lineages and Fate Maps in Tunicates: Conservation and Modification

(2014) Hiroki Nishida et al.   ZOOLOGICAL SCIENCE

Testing an unusual in vivo vessel network model: a method to study angiogenesis in the colonial tunicate Botryllus schlosseri

(2014) Fabio Gasparini et al.   Scientific Reports

Hematopoiesis

(2013) M. Jagannathan-Bogdan et al.   DEVELOPMENT

Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition

(2013) Miler T. Lee et al.   NATURE

Identification of a Colonial Chordate Histocompatibility Gene

(2013) A. Voskoboynik et al.   SCIENCE

The genome sequence of the colonial chordate, Botryllus schlosseri

(2013) Ayelet Voskoboynik et al.   eLife

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Snakemake--a scalable bioinformatics workflow engine

(2012) J. Koster et al.   BIOINFORMATICS

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

(2012) Yuval Rinkevich et al.   DEVELOPMENTAL CELL

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Germline cell formation and gonad regeneration in solitary and colonial ascidians

(2011) Kaz Kawamura et al.   DEVELOPMENTAL DYNAMICS

Expression of a Musashi-like gene in sexual and asexual development of the colonial chordate Botryllus schlosseri and phylogenetic analysis of the protein group

(2011) Fabio Gasparini et al.   JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION

Comparative transcriptome analysis reveals vertebrate phylotypic period during organogenesis

(2011) Naoki Irie et al.   Nature Communications

Hydra and the evolution of stem cells

(2009) Thomas C. G. Bosch   BIOESSAYS

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

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Early lineage specification of long-lived germline precursors in the colonial ascidian Botryllus schlosseri

(2009) F. D. Brown et al.   DEVELOPMENT

Vasa and the germ line lineage in a colonial urochordate

(2009) Amalia Rosner et al.   DEVELOPMENTAL BIOLOGY

Differentiation of papillae and rostral sensory neurons in the larva of the ascidianBotryllus schlosseri(Tunicata)

(2009) Federico Caicci et al.   JOURNAL OF COMPARATIVE NEUROLOGY

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

(2008) Ayelet Voskoboynik et al.   Cell Stem Cell

Evolution of the thyroid: Anterior–posterior regionalization of theOikopleura endostyle revealed byOtx,Pax2/5/8, andHox1 expression

(2008) Cristian Cañestro et al.   DEVELOPMENTAL DYNAMICS

Two-step oligoclonal development of male germ cells

(2008) H. Ueno et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA