Early expression onset of tissue-specific effector genes during the specification process in sea urchin embryos

Wound repair in sea urchin larvae involves pigment cells and blastocoelar cells

(2022) Raymond L. Allen et al.   DEVELOPMENTAL BIOLOGY

Homologous gene regulatory networks control development of apical organs and brains in Bilateria

(2022) Roberto Feuda et al.   Science Advances

The roles of microRNAs in mouse development

(2021) Brian DeVeale et al.   NATURE REVIEWS GENETICS

Analysis of the DNA-binding properties of Alx1, an evolutionarily conserved regulator of skeletogenesis in echinoderms

(2021) Jennifer Guerrero-Santoro et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Echinobase: leveraging an extant model organism database to build a knowledgebase supporting research on the genomics and biology of echinoderms

(2021) Bradley I Arshinoff et al.   NUCLEIC ACIDS RESEARCH

The gene regulatory control of sea urchin gastrulation

(2020) Charles A. Ettensohn   MECHANISMS OF DEVELOPMENT

A single cell RNA sequencing resource for early sea urchin development

(2020) Stephany Foster et al.   DEVELOPMENT

Regulation of dynamic pigment cell states at single-cell resolution

(2020) Margherita Perillo et al.   eLife

Spatial and temporal patterns of gene expression during neurogenesis in the sea urchin Lytechinus variegatus

(2019) Leslie A. Slota et al.   EvoDevo

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

A biphasic role of non-canonical Wnt16 signaling during early anterior-posterior patterning and morphogenesis of the sea urchin embryo

(2019) Marina Martínez-Bartolomé et al.   DEVELOPMENT

HpBase: A genome database of a sea urchin, Hemicentrotus pulcherrimus

(2018) Sonoko Kinjo et al.   DEVELOPMENT GROWTH & DIFFERENTIATION

The role of retinoic acid signaling in starfish metamorphosis

(2018) Shumpei Yamakawa et al.   EvoDevo

From Genome to Anatomy: The Architecture and Evolution of the Skeletogenic Gene Regulatory Network of Sea Urchins and Other Echinoderms

(2018) Tanvi Shashikant et al.   GENESIS

Neurogenesis in the sea urchin embryo is initiated uniquely in three domains

(2018) David R. McClay et al.   DEVELOPMENT

Metallothionein Gene Family in the Sea Urchin Paracentrotus lividus: Gene Structure, Differential Expression and Phylogenetic Analysis

(2017) Maria Ragusa et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Characterization and expression analysis of Galnts in developing Strongylocentrotus purpuratus embryos

(2017) Amber L. Famiglietti et al.   PLoS One

Sequential Response to Multiple Developmental Network Circuits Encoded in an Intronic cis- Regulatory Module of Sea Urchin hox11/13b

(2017) Miao Cui et al.   Cell Reports

Functional diversification of sea urchin ABCC1 (MRP1) by alternative splicing

(2016) Tufan Gökirmak et al.   AMERICAN JOURNAL OF PHYSIOLOGY-CELL PHYSIOLOGY

Cilia are required for asymmetric nodal induction in the sea urchin embryo

(2016) Matthias Tisler et al.   BMC DEVELOPMENTAL BIOLOGY

Roles ofhesCandgcmin echinoid larval mesenchyme cell development

(2016) Atsuko Yamazaki et al.   DEVELOPMENT GROWTH & DIFFERENTIATION

The diversity of nanos expression in echinoderm embryos supports different mechanisms in germ cell specification

(2016) Tara Fresques et al.   EVOLUTION & DEVELOPMENT

The origin and evolution of cell types

(2016) Detlev Arendt et al.   NATURE REVIEWS GENETICS

Robustness and Accuracy in Sea Urchin Developmental Gene Regulatory Networks

(2016) Smadar Ben-Tabou de-Leon   Frontiers in Genetics

microRNAs as Developmental Regulators

(2015) Kathryn N. Ivey et al.   Cold Spring Harbor Perspectives in Biology

Logics and properties of a genetic regulatory program that drives embryonic muscle development in an echinoderm

(2015) Carmen Andrikou et al.   eLife

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Genome-wide analysis of the skeletogenic gene regulatory network of sea urchins

(2014) K. Rafiq et al.   DEVELOPMENT

Developmental gene regulatory network evolution: Insights from comparative studies in echinoderms

(2014) Veronica F. Hinman et al.   GENESIS

Encoding regulatory state boundaries in the pregastrular oral ectoderm of the sea urchin embryo

(2014) E. Li et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenomics of strongylocentrotid sea urchins

(2013) Kord M Kober et al.   BMC EVOLUTIONARY BIOLOGY

Integration of Canonical and Noncanonical Wnt Signaling Pathways Patterns the Neuroectoderm Along the Anterior–Posterior Axis of Sea Urchin Embryos

(2013) Ryan C. Range et al.   PLOS BIOLOGY

Diversification of oral and aboral mesodermal regulatory states in pregastrular sea urchin embryos

(2012) Stefan C. Materna et al.   DEVELOPMENTAL BIOLOGY

ATP-binding cassette (ABC) transporter expression and localization in sea urchin development

(2012) Lauren E. Shipp et al.   DEVELOPMENTAL DYNAMICS

Heterochronic activation of VEGF signaling and the evolution of the skeleton in echinoderm pluteus larvae

(2012) Yoshiaki Morino et al.   EVOLUTION & DEVELOPMENT

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

The genomic regulatory control of skeletal morphogenesis in the sea urchin

(2011) K. Rafiq et al.   DEVELOPMENT

Evolutionary crossroads in developmental biology: sea urchins

(2011) D. R. McClay   DEVELOPMENT

Precise cis-regulatory control of spatial and temporal expression of the alx-1 gene in the skeletogenic lineage of s. purpuratus

(2011) Sagar Damle et al.   DEVELOPMENTAL BIOLOGY

P58-A and P58-B: Novel proteins that mediate skeletogenesis in the sea urchin embryo

(2011) Ashrifia Adomako-Ankomah et al.   DEVELOPMENTAL BIOLOGY

Select microRNAs are essential for early development in the sea urchin

(2011) Jia L. Song et al.   DEVELOPMENTAL BIOLOGY

Expression pattern of polyketide synthase-2 during sea urchin development

(2011) Adam Beeble et al.   GENE EXPRESSION PATTERNS

Hidden Markov model speed heuristic and iterative HMM search procedure

(2010) L Steven Johnson et al.   BMC BIOINFORMATICS

Cis-regulatory analysis of the sea urchin pigment cell gene polyketide synthase

(2010) Cristina Calestani et al.   DEVELOPMENTAL BIOLOGY

Conserved early expression patterns of micromere specification genes in two echinoid species belonging to the orders clypeasteroida and echinoida

(2010) Atsuko Yamazaki et al.   DEVELOPMENTAL DYNAMICS

SpSM30 gene family expression patterns in embryonic and adult biomineralized tissues of the sea urchin, Strongylocentrotus purpuratus

(2010) Christopher E. Killian et al.   GENE EXPRESSION PATTERNS

Proteomic analysis of sea urchin (Strongylocentrotus purpuratus) spicule matrix

(2010) Karlheinz Mann et al.   Proteome Science

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Hedgehog signaling patterns mesoderm in the sea urchin

(2009) Katherine D. Walton et al.   DEVELOPMENTAL BIOLOGY

The endoderm gene regulatory network in sea urchin embryos up to mid-blastula stage

(2009) Isabelle S. Peter et al.   DEVELOPMENTAL BIOLOGY

Role of the nanos homolog during sea urchin development

(2009) Takayoshi Fujii et al.   DEVELOPMENTAL DYNAMICS

The evolution of hierarchical gene regulatory networks

(2009) Douglas H. Erwin et al.   NATURE REVIEWS GENETICS

Regulation of Maternal mRNAs in Early Development

(2008) Brian M. Farley et al.   CRITICAL REVIEWS IN BIOCHEMISTRY AND MOLECULAR BIOLOGY

Krüppel-like is required for nonskeletogenic mesoderm specification in the sea urchin embryo

(2008) Atsuko Yamazaki et al.   DEVELOPMENTAL BIOLOGY

A Wnt-FoxQ2-Nodal Pathway Links Primary and Secondary Axis Specification in Sea Urchin Embryos

(2008) Shunsuke Yaguchi et al.   DEVELOPMENTAL CELL

Transfer of a large gene regulatory apparatus to a new developmental address in echinoid evolution

(2008) F. Gao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Global regulatory logic for specification of an embryonic cell lineage

(2008) P. Oliveri et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA