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Fiona M Cunningham, James E Allen, Jamie Allen, Jorge Álvarez-Jarreta, M Ridwan Amode, Irina M. Armean, Olanrewaju Austine-Orimoloye, Andrey G Azov, If Barnes, Ruth Bennett and 85 more
Ensembl (https://www.ensembl.org) is unique in its flexible infrastructure for access to genomic data and annotation. It has been designed to efficiently deliver annotation at scale for all eukaryotic life, and it also provides deep comprehensive annotation for key species. Genomes representing a greater diversity of species are increasingly being sequenced. In response, we have focussed our recent efforts on expediting the annotation of new assemblies. Here, we report the release of the greatest annual number of newly annotated genomes in the history of Ensembl via our dedicated Ensembl Rapid Release platform (http://rapid.ensembl.org). We have also developed a new method to generate comparative analyses at scale for these assemblies and, for the first time, we have annotated non-vertebrate eukaryotes. Meanwhile, we continually improve, extend and update the annotation for our high-value reference vertebrate genomes and report the details here. We have a range of specific software tools for specific tasks, such as the Ensembl Variant Effect Predictor (VEP) and the newly developed interface for the Variant Recoder. All Ensembl data, software and tools are freely available for download and are accessible programmatically.
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Cunningham, F. M., Allen, J. E., Allen, J., Álvarez-Jarreta, J., Amode, M. R., Armean, I. M., Austine-Orimoloye, O., Azov, A. G., Barnes, I., Bennett, R., Berry, A. E., Bhai, J. N. N. T., Bignell, A., Billis, K., Boddu, S., Brooks, L., Charkhchi, M., Cummins, C. A., Fioretto, L. D. R., … Flicek, P. (2021). Ensembl 2022. Nucleic Acids Research, 50(D1), D988–D995. https://doi.org/10.1093/nar/gkab1049
Cunningham, Fiona M, et al. "Ensembl 2022." Nucleic Acids Research, vol. 50, no. D1, 2021, pp. D988–D995, https://doi.org/10.1093/nar/gkab1049.
Cunningham, Fiona M, James E Allen, Jamie Allen, Jorge Álvarez-Jarreta, M Ridwan Amode, Irina M. Armean, Olanrewaju Austine-Orimoloye, et al. "Ensembl 2022." Nucleic Acids Research 50, no. D1 (2021): D988–D995. https://doi.org/10.1093/nar/gkab1049.
Cunningham F. M., Allen J. E., Allen J. [и др.] Ensembl 2022 // Nucleic Acids Research. — 2021. — Vol. 50, № D1. — P. D988–D995. — URL: https://doi.org/10.1093/nar/gkab1049
@article{cunningham2021ensembl,
title = {{Ensembl 2022}},
author = {Fiona M Cunningham and James E Allen and Jamie Allen and Jorge Álvarez-Jarreta and M Ridwan Amode and Irina M. Armean and Olanrewaju Austine-Orimoloye and Andrey G Azov and If Barnes and Ruth Bennett and Andrew E. Berry and Jyothish N Nair Thulasee Bhai and Alexandra Bignell and Konstantinos Billis and Sanjay Boddu and Lucy Brooks and Mehrnaz Charkhchi and Carla A. Cummins and Luca Da Rin Fioretto and Claire Davidson and Kamalkumar Dodiya and Sarah Donaldson and Bilal El Houdaigui and Tamara El Naboulsi and Reham Fatima and Carlos Garcia Giron and Thiago A. L. Genez and Jose Gonzalez Martinez and Cristina Guijarro-Clarke and Arthur W. Gymer and Matthew P. Hardy and Zoe Hollis and Thibaut Hourlier and Toby Hunt and Thomas Juettemann and Vinay Kaikala and Mike Kay and Ilias Lavidas and Anh Tuấn Lê and Diana Lemos and José Carlos Marugán and Shamika Mohanan and Aleena Mushtaq and Marc Naven and Denye Nathaniel Ogeh and Anne Parker and Andrew Parton and Malcolm Perry and Ivana Piližota and Irina Prosovetskaia and Manoj Pandian Sakthivel and Ahamed Imran Abdul Salam and Bianca M. Schmitt and Helen Schuilenburg and Dan Sheppard and José G Pérez-Silva and William Stark and Emily Steed and Kyösti Sutinen and Ranjit Sukumaran and Dulika Sumathipala and Marie‐Marthe Suner and Michał Szpak and Anja Thormann and Francesca Floriana Tricomi and David Urbina-Gómez and Andres Veidenberg and Thomas Walsh and Brandon Walts and Natalie L. Dawson and Andrea Winterbottom and Elizabeth Wass and Marc Chakiachvili and Bethany Flint and Adam Frankish and Stefano Giorgetti and Leanne S. Haggerty and Sarah E Hunt and Garth R Ilsley and Jane E. Loveland and Fergal J. Martin and Benjamin Moore and Jonathan M. Mudge and Matthieu Muffato and Emily H. Perry and Magali Ruffier and John G. Tate and David Thybert and Stephen J. Trevanion and Sarah C. Dyer and Peter W. Harrison and Kevin Howe and Andrew D. Yates and Daniel R. Zerbino and Paul Flicek},
journal = {Nucleic Acids Research},
year = {2021},
volume = {50},
number = {D1},
pages = {D988--D995},
doi = {10.1093/nar/gkab1049},
url = {https://doi.org/10.1093/nar/gkab1049}
}TY - JOUR AU - Cunningham, Fiona M AU - Allen, James E AU - Allen, Jamie AU - Álvarez-Jarreta, Jorge AU - Amode, M Ridwan AU - Armean, Irina M. AU - Austine-Orimoloye, Olanrewaju AU - Azov, Andrey G AU - Barnes, If AU - Bennett, Ruth AU - Berry, Andrew E. AU - Bhai, Jyothish N Nair Thulasee AU - Bignell, Alexandra AU - Billis, Konstantinos AU - Boddu, Sanjay AU - Brooks, Lucy AU - Charkhchi, Mehrnaz AU - Cummins, Carla A. AU - Fioretto, Luca Da Rin AU - Davidson, Claire AU - Dodiya, Kamalkumar AU - Donaldson, Sarah AU - Houdaigui, Bilal El AU - Naboulsi, Tamara El AU - Fatima, Reham AU - Giron, Carlos Garcia AU - Genez, Thiago A. L. AU - Martinez, Jose Gonzalez AU - Guijarro-Clarke, Cristina AU - Gymer, Arthur W. AU - Hardy, Matthew P. AU - Hollis, Zoe AU - Hourlier, Thibaut AU - Hunt, Toby AU - Juettemann, Thomas AU - Kaikala, Vinay AU - Kay, Mike AU - Lavidas, Ilias AU - Lê, Anh Tuấn AU - Lemos, Diana AU - Marugán, José Carlos AU - Mohanan, Shamika AU - Mushtaq, Aleena AU - Naven, Marc AU - Ogeh, Denye Nathaniel AU - Parker, Anne AU - Parton, Andrew AU - Perry, Malcolm AU - Piližota, Ivana AU - Prosovetskaia, Irina AU - Sakthivel, Manoj Pandian AU - Salam, Ahamed Imran Abdul AU - Schmitt, Bianca M. AU - Schuilenburg, Helen AU - Sheppard, Dan AU - Pérez-Silva, José G AU - Stark, William AU - Steed, Emily AU - Sutinen, Kyösti AU - Sukumaran, Ranjit AU - Sumathipala, Dulika AU - Suner, Marie‐Marthe AU - Szpak, Michał AU - Thormann, Anja AU - Tricomi, Francesca Floriana AU - Urbina-Gómez, David AU - Veidenberg, Andres AU - Walsh, Thomas AU - Walts, Brandon AU - Dawson, Natalie L. AU - Winterbottom, Andrea AU - Wass, Elizabeth AU - Chakiachvili, Marc AU - Flint, Bethany AU - Frankish, Adam AU - Giorgetti, Stefano AU - Haggerty, Leanne S. AU - Hunt, Sarah E AU - Ilsley, Garth R AU - Loveland, Jane E. AU - Martin, Fergal J. AU - Moore, Benjamin AU - Mudge, Jonathan M. AU - Muffato, Matthieu AU - Perry, Emily H. AU - Ruffier, Magali AU - Tate, John G. AU - Thybert, David AU - Trevanion, Stephen J. AU - Dyer, Sarah C. AU - Harrison, Peter W. AU - Howe, Kevin AU - Yates, Andrew D. AU - Zerbino, Daniel R. AU - Flicek, Paul TI - Ensembl 2022 JO - Nucleic Acids Research VL - 50 IS - D1 SP - D988 EP - D995 PY - 2021 DA - 2021/10/19 DO - 10.1093/nar/gkab1049 UR - https://doi.org/10.1093/nar/gkab1049 ER -
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