ArticleDatabase : the journal of biological databases and curation2012
Community annotation and bioinformatics workforce development in concert--Little Skate Genome Annotation Workshops and Jamborees.
Article in Database : the journal of biological databases and curation, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 32 papers.
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Who cites it
32 citing papers in PubMed.
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- The importance of a single amino acid substitution in reduced red blood cell carbonic anhydrase function of early-diverging fish.Journal of comparative physiology. B, Biochemical, systemic, and environmental physiology · 2020Article
- Estimating effective population size using RADseq: Effects of SNP selection and sample size.Ecology and evolution · 2020Article
- Ezh1 arises from Ezh2 gene duplication but its function is not required for zebrafish development.Scientific reports · 2019Article
- White shark genome reveals ancient elasmobranch adaptations associated with wound healing and the maintenance of genome stability.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
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- Phylotranscriptomics suggests the jawed vertebrate ancestor could generate diverse helper and regulatory T cell subsets.BMC evolutionary biology · 2018Article
- A role for the CXCR4-CXCL12 axis in the little skate, Leucoraja erinacea.American journal of physiology. Regulatory, integrative and comparative physiology · 2018Article
- The nanos1 gene was duplicated in early Vertebrates and the two paralogs show different gonadal expression profiles in a shark.Scientific reports · 2018Article
- Evolution of the p53-MDM2 pathway.BMC evolutionary biology · 2017Article
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- The small non-coding RNA processing machinery of two living fossil species, lungfish and coelacanth, gives new insights into the evolution of the Argonaute protein family.Genome biology and evolution · 2017Article
- Comparative transcriptomics of elasmobranchs and teleosts highlight important processes in adaptive immunity and regional endothermy.BMC genomics · 2017Article
- The fin-to-limb transition as the re-organization of a Turing pattern.Nature communications · 2016Article
- Whole Genome Sequencing of the Asian Arowana (Scleropages formosus) Provides Insights into the Evolution of Ray-Finned Fishes.Genome biology and evolution · 2015Article
- A shift in anterior-posterior positional information underlies the fin-to-limb evolution.eLife · 2015Article
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14 authors.
Funding
Abstract
Recent advances in high-throughput DNA sequencing technologies have equipped biologists with a powerful new set of tools for advancing research goals. The resulting flood of sequence data has made it critically important to train the next generation of scientists to handle the inherent bioinformatic challenges. The North East Bioinformatics Collaborative (NEBC) is undertaking the genome sequencing and annotation of the little skate (Leucoraja erinacea) to promote advancement of bioinformatics infrastructure in our region, with an emphasis on practical education to create a critical mass of informatically savvy life scientists. In support of the Little Skate Genome Project, the NEBC members have developed several annotation workshops and jamborees to provide training in genome sequencing, annotation and analysis. Acting as a nexus for both curation activities and dissemination of project data, a project web portal, SkateBase (http://skatebase.org) has been developed. As a case study to illustrate effective coupling of community annotation with workforce development, we report the results of the Mitochondrial Genome Annotation Jamborees organized to annotate the first completely assembled element of the Little Skate Genome Project, as a culminating experience for participants from our three prior annotation workshops. We are applying the physical/virtual infrastructure and lessons learned from these activities to enhance and streamline the genome annotation workflow, as we look toward our continuing efforts for larger-scale functional and structural community annotation of the L. erinacea genome.
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