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Base-resolution DNA methylation maps of purple sea urchin (Strongylocentrotus...
Using MethylC-seq we investigated single-base resolution methylomes of sea urchin during development. Overall design: MethylC-seq was performed on (i) 24 hpf, 48 hpf, 72 hpf... -
Plastic leachate induced transcriptomic changes in Strongylocentrotus purpuratus
S. purpuratus development is disturbed by plastic particle leachates and transcriptomic sequencing reveals altered gene expression determining malformed structures -
Strongylocentrotus purpuratus cell-type specific transcriptomes
Multiple cell-type specific transcriptomes of sea urchin (Strongylocentrotus purpuratus) embryos. -
Genetics of gene expression responses to temperature stress in a sea urchin g...
Stress responses play an important role in shaping species distributions and robustness to climate change. We investigated how stress responses alter the contribution of... -
Gene expression alterations in SoxC knockdown sea urchin embryos
Transcription factor SoxC is required for all neural development in purple sea urchin S. purpuratus embryos. To begin to develop a gene regulatory network for neural... -
Strongylocentrotus purpuratus Transcriptome or Gene expression
To better understand the phylogeny of extant echinoderms and the placement of Xyloplax, we employed RNA-Seq to retrieve large numbers of orthologous loci from each transcriptome... -
Parental environments alter DNA methylation in offspring of the purple sea ur...
MEDIP sequence data for "Parental environments alter DNA methylation in offspring of the purple sea urchin, Strongylocentrotus purpuratus" -
Developmental dynamics of sea urchin and sea star cis-regulation and the evol...
We identified cis-regulatory elements based on their dynamic chromatin accessibility during the gastrula-larva stages of sea urchin and sea star and studied their evolution in... -
Evolutionary comparison reveals that diverging CCCTC-binding factor (CTCF) si...
Comparison of conserved TAD boundaries reveals that diverging CTCF sites is an evolutionary conserved signature associated with TAD borders Overall design: 4C-seq samples for... -
Transcriptome of the small micromeres in Strongylocentrotus purpuratus
We isolated and deep sequenced the transcriptome of the small micromeres, the primordial germ cells (PGCs) of the sea urchin S. purpuratus. -
Strongylocentrotus purpuratus cell-type specific transcriptomes II
Multiple cell-type specific transcriptomes of sea urchin (Strongylocentrotus purpuratus) embryos. -
Sea urchin single cells sequencing
Single red spherule cell and sperm were isolated from the same S.purpuratus sea urchin using limiting dilution followed by visualization of sperm by live/dead staining with... -
PRO-seq, ATAC-seq, and Pol II ChIP-seq in 20 hour sea urchin embryos (ATAC-Seq)
PRO-seq, ATAC-seq, and Pol II ChIP-seq signals are used to predict active developmental enhancers. Overall design: Machine learning models are trained and tested wit the... -
Thyroid hormone transcriptional regulation in the sea urchin, Strongylocentro...
Thyroid hormones are critical regulators of development and metamorphosis. There is an emerging understanding that thyroid hormones also regulate gene expression in non-chordate... -
Moderate and extreme low-pH adaptive alleles revealed in a single generation ...
Global climate change is resulting in rapid environmental shifts that will require adaptive evolution to enable population persistence. For many species, particularly those that... -
Strongylocentrotus purpuratus early transcriptome
Transcriptome from cleavage stage embryos and a few stages post MZT. -
A single cell RNA-seq resource for early sea urchin development
Here we leverage the sea urchin embryo for its rich history of developmental transitions, its well-established gene regulatory network, and the ability to readily dissociate... -
Comparative analysis of genome-scale, base-resolution DNA methylation profile...
We mapped DNA methylation in 580 animal species (535 vertebrates, 45 invertebrates), resulting in 2443 genome-scale, base-resolution DNA methylation profiles of primary tissue... -
Epigenomics and transcriptomics of Stronglyocentrotus purpuratus in a transge...
Gene expression plasticity can confer physiological plasticity in response to the environment. However, whether or not epigenetic marks play a role in contributing to the... -
Species' attributes predict the relative magnitude of ecological and genetic ...
Theoretically, species' characteristics should allow estimation of dispersal potential and, in turn, explain levels of population genetic differentiation. However, a mismatch...