Correction: Double triage to identify poorly annotated genes in maize: The missing link in community curation.

Autor: Marcela K Tello-Ruiz, Cristina F Marco, Fei-Man Hsu, Rajdeep S Khangura, Pengfei Qiao, Sirjan Sapkota, Michelle C Stitzer, Rachael Wasikowski, Hao Wu, Junpeng Zhan, Kapeel Chougule, Lindsay M Barone, Cornel Ghiban, Demitri Muna, Andrew C Olson, Liya Wang, Doreen Ware, David A Micklos

Publikováno v: PLoS ONE, Vol 19, Iss 11, p e0314495 (2024)

[This corrects the article DOI: 10.1371/journal.pone.0224086.].

Externí odkaz: https://doaj.org/article/de46b68cbdc148e5bc71e3e74b04b2b7

Double triage to identify poorly annotated genes in maize: The missing link in community curation.

Autor: Marcela K Tello-Ruiz, Cristina F Marco, Fei-Man Hsu, Rajdeep S Khangura, Pengfei Qiao, Sirjan Sapkota, Michelle C Stitzer, Rachael Wasikowski, Hao Wu, Junpeng Zhan, Kapeel Chougule, Lindsay C Barone, Cornel Ghiban, Demitri Muna, Andrew C Olson, Liya Wang, Doreen Ware, David A Micklos

Publikováno v: PLoS ONE, Vol 14, Iss 10, p e0224086 (2019)

The sophistication of gene prediction algorithms and the abundance of RNA-based evidence for the maize genome may suggest that manual curation of gene models is no longer necessary. However, quality metrics generated by the MAKER-P gene annotation pi

Externí odkaz: https://doaj.org/article/13feb84c40454a8299d72ff931d09b6c

An improved reference of the grapevine genome supports reasserting the origin of the PN40024 highly-homozygous genotype

Autor: Amandine Velt, Bianca Frommer, Sophie Blanc, Daniela Holtgräwe, Éric Duchêne, Vincent Dumas, Jérôme Grimplet, Philippe Hugueney, Marie Lahaye, Catherine Kim, José Tomás Matus, David Navarro-Payá, Luis Orduña, Marcela K. Tello-Ruiz, Nicola Vitulo, Doreen Ware, Camille Rustenholz

The genome sequence assembly of the diploid and highly homozygousV. viniferagenotype PN40024 serves as the reference for many grapevine studies. Despite several improvements of the PN40024 genome assembly, its current version PN12X.v2 is quite fragme

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::92142f374ef200633255614cdbba407b
https://doi.org/10.1101/2022.12.21.521434

Expression Atlas update: gene and protein expression in multiple species

Autor: John C. Marioni, Jana Eliasova, Alfonso Munoz-Pomer, Upendra Kumbham, David García-Seisdedos, Sunita Kumari, Zhichiao Miao, Doreen Ware, Marcela K. Tello-Ruiz, Anja Füllgrabe, Sarah A. Teichmann, Tony Burdett, Suhaib Mohammed, Mathias Walzer, David Osumi-Sutherland, Juan Antonio Vizcaíno, Kerstin B. Meyer, Natassja Bush, Jonathan R. Manning, Lingyun Zhao, Deepti J. Kundu, Laura Clarke, Irene Papatheodorou, Alvis Brazma, Pablo Moreno, Haider Iqbal, Nancy George, Ananth Prakash, Silvie Fexova, Shengbo Wang, Andrey Solovyev, Martijn C. Nawijn, Yalan Bi, Mark J. Arends

Publikováno v: Nucleic Acid Research
Nucleic Acids Research, 50(D1):gkab1030, 129-140. Oxford University Press
Moreno, P, Fexova, S, George, N, Manning, J R, Miao, Z, Mohammed, S, Muñoz-pomer, A, Fullgrabe, A, Bi, Y, Bush, N, Iqbal, H, Kumbham, U, Solovyev, A, Zhao, L, Prakash, A, García-seisdedos, D, Kundu, D, Wang, S, Walzer, M, Clarke, L, Osumi-sutherland, D, Tello-ruiz, M, Kumari, S, Ware, D, Eliasova, J, Arends, M, Nawijn, M, Meyer, K, Burdett, T, Marioni, J, Teichmann, S, Vizcaíno, J, Brazma, A & Papatheodorou, I 2021, ' Expression Atlas update : gene and protein expression in multiple species ', Nucleic Acids Research, vol. 50, no. D1, pp. D129-D140 . https://doi.org/10.1093/nar/gkab1030
Nucleic Acids Research

The EMBL-EBI Expression Atlas is an added value knowledge base that enables researchers to answer the question of where (tissue, organism part, developmental stage, cell type) and under which conditions (disease, treatment, gender, etc) a gene or pro

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6df3657a122c18e66f9e4d8b29f9d492
https://www.repository.cam.ac.uk/handle/1810/333881

Plant Reactome: a knowledgebase and resource for comparative pathway analysis

Autor: Pankaj Jaiswal, Doreen Ware, Lincoln Stein, Marcela K. Tello-Ruiz, Antonio Fabregat Mundo, Jason Kiff, Alfonso Munoz-Pomer, Irene Papatheodorou, Sushma Naithani, Priyanka Garg, Parul Gupta, Evan E Bolton, Peter D'Eustachio, Justin Cook, Suhaib Mohammed, Andrew Olson, Tiejun Cheng, Sharon Wei, Daemon A Dikeman, Justin Elser, Justin Preece

Publikováno v: Nucleic Acids Research

Plant Reactome (https://plantreactome.gramene.org) is an open-source, comparative plant pathway knowledgebase of the Gramene project. It uses Oryza sativa (rice) as a reference species for manual curation of pathways and extends pathway knowledge to

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d9bc6c644a3826117fecd7f76b771639
http://europepmc.org/articles/PMC7145600