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List of works by Joseph F Ryan

A Chromosome-level Genome Assembly of the Highly Heterozygous Sea Urchin<i>Echinometra</i>sp. EZ Reveals Adaptation in the Regulatory Regions of Stress Response Genes

scientific article published in 2022

A customized Web portal for the genome of the ctenophore Mnemiopsis leidyi.

scientific article

A new transcriptome and transcriptome profiling of adult and larval tissue in the box jellyfish Alatina alata: an emerging model for studying venom, vision and sex

scientific article

A novel regulatory gene promotes novel cell fate by suppressing ancestral fate in the sea anemone <i>Nematostella vectensis</i>

scientific article published on 02 May 2022

A reconstruction of sexual modes throughout animal evolution.

scientific article published on 6 December 2017

Automation and Evaluation of the SOWH Test with SOWHAT

Automation and Evaluation of the SOWH Test with SOWHAT.

scientific article

Comprehensive phylogenomic analyses resolve cnidarian relationships and the origins of key organismal traits

article published in 2017

Comprehensive phylogenomic analyses resolve cnidarian relationships and the origins of key organismal traits

Cytoplasmic Polyadenylation Is an Ancestral Hallmark of Early Development in Animals

scientific article published in 2023

Did the ctenophore nervous system evolve independently?

scientific article published on 11 June 2014

Erratum to: A new transcriptome and transcriptome profiling of adult and larval tissue in the box jellyfish Alatina alata: an emerging model for studying venom, vision and sex.

scientific article published on 28 November 2016

Establishing a model organism: a report from the first annual Nematostella meeting

scientific article published on 18 November 2011

Extreme mitochondrial evolution in the ctenophore Mnemiopsis leidyi: Insight from mtDNA and the nuclear genome ⬇️

scientific article (publication date: August 2011)

Genetic analysis of hematological parameters in incipient lines of the collaborative cross

scientific article published on February 2012

Genomic insights into Wnt signaling in an early diverging metazoan, the ctenophore Mnemiopsis leidyi

scientific article

Genomic organization, evolution, and expression of photoprotein and opsin genes in Mnemiopsis leidyi: a new view of ctenophore photocytes

scientific article

Hox, Wnt, and the evolution of the primary body axis: insights from the early-divergent phyla

scientific article (publication date: 13 December 2007)

Increased taxon sampling reveals thousands of hidden orthologs in flatworms

Increased taxon sampling reveals thousands of hidden orthologs in flatworms.

scientific article published on 11 April 2017

Informatic selection of a neural crest-melanocyte cDNA set for microarray analysis

Insights into the Biodiversity, Behavior, and Bioluminescence of Deep-Sea Organisms Using Molecular and Maritime Technology

scientific article published in 2017

Lineage-specific evolution of the vertebrate Otopetrin gene family revealed by comparative genomic analyses

scientific article

Low coverage sequencing of three echinoderm genomes: the brittle star Ophionereis fasciata, the sea star Patiriella regularis, and the sea cucumber Australostichopus mollis

scientific article

MicroRNAs and essential components of the microRNA processing machinery are not encoded in the genome of the ctenophore Mnemiopsis leidyi

scientific article

Nuclear receptors from the ctenophore Mnemiopsis leidyi lack a zinc-finger DNA-binding domain: lineage-specific loss or ancestral condition in the emergence of the nuclear receptor superfamily?

scientific article published in 2011

Opsin Repertoire and Expression Patterns in Horseshoe Crabs: Evidence from the Genome of Limulus polyphemus (Arthropoda: Chelicerata).

scientific article published on 29 April 2016

Parallel construction of orthologous sequence-ready clone contig maps in multiple species

scientific article

Pre-bilaterian origins of the Hox cluster and the Hox code: evidence from the sea anemone, Nematostella vectensis

scientific article

Rising starlet: the starlet sea anemone, Nematostella vectensis

scientific article

StellaBase: the Nematostella vectensis Genomics Database

scientific article

The Global Invertebrate Genomics Alliance (GIGA): developing community resources to study diverse invertebrate genomes

scientific article

The Homeodomain Resource: a comprehensive collection of sequence, structure, interaction, genomic and functional information on the homeodomain protein family.

scientific article published on 17 April 2009

The Homeodomain Resource: sequences, structures and genomic information

scientific article

The ctenophore Mnemiopsis leidyi deploys a rapid injury response dating back to the last common animal ancestor

scientific article published in 2024

The ctenophore Mnemiopsis leidyi regulates egg production via conspecific communication

scientific article published on 26 March 2018

The diversification of the LIM superclass at the base of the metazoa increased subcellular complexity and promoted multicellular specialization

scientific article

The evolution of animal genomes

scientific article published on 9 September 2015

The genome of the ctenophore Mnemiopsis leidyi and its implications for cell type evolution

scientific article

The homeodomain complement of the ctenophore Mnemiopsis leidyi suggests that Ctenophora and Porifera diverged prior to the ParaHoxozoa

scientific article

The mid-developmental transition and the evolution of animal body plans

scientific article

Timing and scope of genomic expansion within Annelida: evidence from homeoboxes in the genome of the earthworm Eisenia fetida

article

Tracing animal genomic evolution with the chromosomal-level assembly of the freshwater sponge Ephydatia muelleri

scientific article published on 27 July 2020

Where is my mind? How sponges and placozoans may have lost neural cell types

scientific article

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