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2023
Journal article
Comparative analysis of repeat content in plant genomes, large and small.
The DNA Features pipeline is the analysis pipeline at EMBL-EBI that annotates repeat elements, including transposable elements. With Ensembl’s goal to stay at the cutting edge of genome annotation, we proved that this pipeline needed an update. We then created a new analysis that allowed the Ensembl database to store...Argentin, Joris ; Bolser, Dan ; Kersey, Paul J. ; Flicek, Paul
Genomics, Transposons, Plants, Annotation, Comparative analysis, and Pipeline
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2022
Journal article
Standards recommendations for the Earth BioGenome Project.
A global international initiative, such as the Earth BioGenome Project (EBP), requires both agreement and coordination on standards to ensure that the collective effort generates rapid progress toward its goals. To this end, the EBP initiated five technical standards committees comprising volunteer members from the global genomics scientific community: Sample...Lawniczak, Mara K. N. ; Durbin, Richard ; Flicek, Paul ; Lindblad-Toh, Kerstin ; Wei, Xiaofeng …
Earth BioGenome Project, Ethics, Genomics, and Genome assembly
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2020
Journal article
Gramene 2021: harnessing the power of comparative genomics and pathways for plant research.
Gramene (http://www.gramene.org), a knowledgebase founded on comparative functional analyses of genomic and pathway data for model plants and major crops, supports agricultural researchers worldwide. The resource is committed to open access and reproducible science based on the FAIR data principles. Since the last NAR update, we made nine releases; doubled...Tello-Ruiz, Marcela K ; Naithani, Sushma ; Gupta, Parul ; Olson, Andrew ; Wei, Sharon …
Major crops, Genomics, Model plants, Comparative genomics, Gramene, and Databases
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2021
Journal article
Uses and benefits of digital sequence information from plant genetic resources: Lessons learnt from botanical collections.
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2020
Journal article
Selecting for useful properties of plants and fungi – Novel approaches, opportunities, and challenges
Societal Impact Statement For millennia, humans have used plants and fungi, as foods, fuels, fibers, and medicines; and have developed techniques for improving their usefulness to our species, mostly through selection of desirable traits. With human populations forecast to rise, the availability of arable land likely to fall amid climate... -
2020
Journal article
Conservation Policy: Helping or hindering science to unlock properties of plants and fungi.
Societal Impact Statement Biodiversity loss is happening at an unprecedented rate. Understanding and protecting biodiversity has never been more urgent, and scientific research is key to this. Fair and transparent access and benefit sharing policies enable research to take place, whilst supporting sustainable livelihoods of communities and ensuring benefits are...