Lineage dynamics of the endosymbiotic cell type in the soft coral Xenia

Single-Cell RNA-Seq Technologies and Related Computational Data Analysis

(2019) Geng Chen et al.   Frontiers in Genetics

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Stem cell differentiation trajectories in Hydra resolved at single-cell resolution

(2019) Stefan Siebert et al.   SCIENCE

Phylogenomics provides a robust topology of the major cnidarian lineages and insights on the origins of key organismal traits

(2018) Ehsan Kayal et al.   BMC EVOLUTIONARY BIOLOGY

Cnidarian Cell Type Diversity and Regulation Revealed by Whole-Organism Single-Cell RNA-Seq

(2018) Arnau Sebé-Pedrós et al.   CELL

Lamins Organize the Global Three-Dimensional Genome from the Nuclear Periphery

(2018) Xiaobin Zheng et al.   MOLECULAR CELL

Phylogenetic characterization of transporter proteins in the cnidarian-dinoflagellate symbiosis

(2018) Ashley E. Sproles et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

An improved primer set and amplification protocol with increased specificity and sensitivity targeting the Symbiodinium ITS2 region

(2018) Benjamin C.C. Hume et al.   PeerJ

RNA velocity of single cells

(2018) Gioele La Manno et al.   NATURE

The RhoGEF protein Plekhg5 regulates apical constriction of bottle cells during gastrulation

(2018) Ivan K. Popov et al.   DEVELOPMENT

Transcriptomic changes with increasing algal symbiont reveal the detailed process underlying establishment of coral-algal symbiosis

(2018) Ikuko Yuyama et al.   Scientific Reports

Wnt11 directs nephron progenitor polarity and motile behavior ultimately determining nephron endowment

(2018) Lori L O'Brien et al.   eLife

Canu: scalable and accurate long-read assembly via adaptivek-mer weighting and repeat separation

(2017) Sergey Koren et al.   GENOME RESEARCH

Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper

(2017) Jaime Huerta-Cepas et al.   MOLECULAR BIOLOGY AND EVOLUTION

STRIDE: Species Tree Root Inference from Gene Duplication Events

(2017) David M Emms et al.   MOLECULAR BIOLOGY AND EVOLUTION

Optimal nutrient exchange and immune responses operate in partner specificity in the cnidarian-dinoflagellate symbiosis

(2017) Jennifer L. Matthews et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

De novo assembly of the Aedes aegypti genome using Hi-C yields chromosome-length scaffolds

(2017) Olga Dudchenko et al.   SCIENCE

LAMPs: Shedding light on cancer biology

(2017) Federica Alessandrini et al.   SEMINARS IN ONCOLOGY

A diverse host thrombospondin-type-1 repeat protein repertoire promotes symbiont colonization during establishment of cnidarian-dinoflagellate symbiosis

(2017) Emilie-Fleur Neubauer et al.   eLife

Liver-Enriched Gene 1, a Glycosylated Secretory Protein, Binds to FGFR and Mediates an Anti-stress Pathway to Protect Liver Development in Zebrafish

(2016) Minjie Hu et al.   PLoS Genetics

The scavenger receptor repertoire in six cnidarian species and its putative role in cnidarian-dinoflagellate symbiosis

(2016) Emilie F. Neubauer et al.   PeerJ

Study of Cnidarian-Algal Symbiosis in the “Omics” Age

(2016) Eli Meyer et al.   BIOLOGICAL BULLETIN

Aiptasia sp. larvae as a model to reveal mechanisms of symbiont selection in cnidarians

(2016) Iliona Wolfowicz et al.   Scientific Reports

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Wnt7b is required for epithelial progenitor growth and operates during epithelial-to-mesenchymal signaling in pancreatic development

(2015) Solomon Afelik et al.   DEVELOPMENTAL BIOLOGY

Whole transcriptome analysis reveals changes in expression of immune-related genes during and after bleaching in a reef-building coral

(2015) J. H. Pinzon et al.   Royal Society Open Science

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Coral host cells acidify symbiotic algal microenvironment to promote photosynthesis

(2014) Katie L. Barott et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DNA barcoding of xeniid soft corals (Octocorallia: Alcyonacea: Xeniidae) from Indonesia: species richness and phylogenetic relationships

(2014) Catherine. S. McFadden et al.   SYSTEMATICS AND BIODIVERSITY

Cloning and Characterization of Four Novel Coral Acid-Rich Proteins that Precipitate Carbonates In Vitro

(2013) Tali Mass et al.   CURRENT BIOLOGY

Extensive Differences in Gene Expression Between Symbiotic and Aposymbiotic Cnidarians

(2013) Erik M. Lehnert et al.   G3-Genes Genomes Genetics

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

HaploMerger: Reconstructing allelic relationships for polymorphic diploid genome assemblies

(2012) S. Huang et al.   GENOME RESEARCH

Progranulin: A Proteolytically Processed Protein at the Crossroads of Inflammation and Neurodegeneration

(2012) Basar Cenik et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Cell Biology of Cnidarian-Dinoflagellate Symbiosis

(2012) S. K. Davy et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

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

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Nematogalectin, a nematocyst protein with GlyXY and galectin domains, demonstrates nematocyte-specific alternative splicing in Hydra

(2010) J. S. Hwang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

DMBT1 functions as pattern-recognition molecule for poly-sulfated and poly-phosphorylated ligands

(2009) Caroline End et al.   EUROPEAN JOURNAL OF IMMUNOLOGY

Gene prediction in novel fungal genomes using an ab initio algorithm with unsupervised training

(2008) V. Ter-Hovhannisyan et al.   GENOME RESEARCH

Evolution of complex structures: minicollagens shape the cnidarian nematocyst

(2008) Charles N. David et al.   TRENDS IN GENETICS