A Comparison of Global Sensitivity Analysis Methods for Explainable AI With an Application in Genomic Prediction

Autor: Bas Van Stein, Elena Raponi, Zahra Sadeghi, Niek Bouman, Roeland C. H. J. Van Ham, Thomas Back

Publikováno v: IEEE Access, Vol 10, Pp 103364-103381 (2022)

Explainable Artificial Intelligence (XAI) is an increasingly important field of research required to bring AI to the next level in real-world applications. Global sensitivity analysis (GSA) methods play an important role in XAI, as they can provide a

Externí odkaz: https://doaj.org/article/912602b853f048eea9e8c199e54528ad

A quantitative and dynamic model of the Arabidopsis flowering time gene regulatory network.

Autor: Felipe Leal Valentim, Simon van Mourik, David Posé, Min C Kim, Markus Schmid, Roeland C H J van Ham, Marco Busscher, Gabino F Sanchez-Perez, Jaap Molenaar, Gerco C Angenent, Richard G H Immink, Aalt D J van Dijk

Publikováno v: PLoS ONE, Vol 10, Iss 2, p e0116973 (2015)

Various environmental signals integrate into a network of floral regulatory genes leading to the final decision on when to flower. Although a wealth of qualitative knowledge is available on how flowering time genes regulate each other, only a few stu

Externí odkaz: https://doaj.org/article/af390de60ca5470ab56ad8ff3fe02392

Unsupervised protein embeddings outperform hand-crafted sequence and structure features at predicting molecular function

Autor: Angel M. Gomez, Roeland C. H. J. van Ham, Amelia Villegas-Morcillo, Victoria E. Sánchez, Stavros Makrodimitris, Marcel J. T. Reinders

Publikováno v: Digibug: Repositorio Institucional de la Universidad de Granada
Universidad de Granada (UGR)
Bioinformatics
Bioinformatics, 37(2)
Digibug. Repositorio Institucional de la Universidad de Granada
instname

This work was supported by Keygene N.V., a crop innovation company in the Netherlands and by the Spanish MINECO/FEDER Project TEC201680141-P with the associated FPI grant BES-2017-079792.
The authors thank Dr. Elvin Isufi and Chirag Raman for th

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3fb821b61244702a2612025188e59b11
http://hdl.handle.net/10481/69200

The genomes of the fungal plant pathogens Cladosporium fulvum and Dothistroma septosporum reveal adaptation to different hosts and lifestyles but also signatures of common ancestry.

Autor: Pierre J G M de Wit, Ate van der Burgt, Bilal Ökmen, Ioannis Stergiopoulos, Kamel A Abd-Elsalam, Andrea L Aerts, Ali H Bahkali, Henriek G Beenen, Pranav Chettri, Murray P Cox, Erwin Datema, Ronald P de Vries, Braham Dhillon, Austen R Ganley, Scott A Griffiths, Yanan Guo, Richard C Hamelin, Bernard Henrissat, M Shahjahan Kabir, Mansoor Karimi Jashni, Gert Kema, Sylvia Klaubauf, Alla Lapidus, Anthony Levasseur, Erika Lindquist, Rahim Mehrabi, Robin A Ohm, Timothy J Owen, Asaf Salamov, Arne Schwelm, Elio Schijlen, Hui Sun, Harrold A van den Burg, Roeland C H J van Ham, Shuguang Zhang, Stephen B Goodwin, Igor V Grigoriev, Jérôme Collemare, Rosie E Bradshaw

Publikováno v: PLoS Genetics, Vol 8, Iss 11, p e1003088 (2012)

We sequenced and compared the genomes of the Dothideomycete fungal plant pathogens Cladosporium fulvum (Cfu) (syn. Passalora fulva) and Dothistroma septosporum (Dse) that are closely related phylogenetically, but have different lifestyles and hosts.

Externí odkaz: https://doaj.org/article/d45bff0bcd374dae9aff246e4b1ca7fd

Finished genome of the fungal wheat pathogen Mycosphaerella graminicola reveals dispensome structure, chromosome plasticity, and stealth pathogenesis.

Autor: Stephen B Goodwin, Sarrah Ben M'barek, Braham Dhillon, Alexander H J Wittenberg, Charles F Crane, James K Hane, Andrew J Foster, Theo A J Van der Lee, Jane Grimwood, Andrea Aerts, John Antoniw, Andy Bailey, Burt Bluhm, Judith Bowler, Jim Bristow, Ate van der Burgt, Blondy Canto-Canché, Alice C L Churchill, Laura Conde-Ferràez, Hans J Cools, Pedro M Coutinho, Michael Csukai, Paramvir Dehal, Pierre De Wit, Bruno Donzelli, Henri C van de Geest, Roeland C H J van Ham, Kim E Hammond-Kosack, Bernard Henrissat, Andrzej Kilian, Adilson K Kobayashi, Edda Koopmann, Yiannis Kourmpetis, Arnold Kuzniar, Erika Lindquist, Vincent Lombard, Chris Maliepaard, Natalia Martins, Rahim Mehrabi, Jan P H Nap, Alisa Ponomarenko, Jason J Rudd, Asaf Salamov, Jeremy Schmutz, Henk J Schouten, Harris Shapiro, Ioannis Stergiopoulos, Stefano F F Torriani, Hank Tu, Ronald P de Vries, Cees Waalwijk, Sarah B Ware, Ad Wiebenga, Lute-Harm Zwiers, Richard P Oliver, Igor V Grigoriev, Gert H J Kema

Publikováno v: PLoS Genetics, Vol 7, Iss 6, p e1002070 (2011)

The plant-pathogenic fungus Mycosphaerella graminicola (asexual stage: Septoria tritici) causes septoria tritici blotch, a disease that greatly reduces the yield and quality of wheat. This disease is economically important in most wheat-growing areas

Externí odkaz: https://doaj.org/article/810b8a63930e4e278d2fbf622f1808d3