ArticleBioinformatics advances2021
ResCap: plant resistance gene prediction and probe generation pipeline for resistance gene sequence capture.
Article in Bioinformatics advances, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed.
- WheatRPred: deep learning framework for predicting disease resistance protein in wheat and its wild relatives.Journal, genetic engineering & biotechnology · 2026Article
- CLAP-HMM: a biologically constrained deep learning framework for resistance gene prediction in long DNA sequences.BMC biotechnology · 2025Article
- PRGminer: harnessing deep learning for the prediction of resistance genes involved in plant defense mechanisms.Frontiers in plant science · 2025Article
- A review of artificial intelligence-assisted omics techniques in plant defense: current trends and future directions.Frontiers in plant science · 2024Review
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Authors and funding
3 authors.
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Abstract
Summary: The discovery of novel resistance genes (R-genes) is an important component in disease resistance breeding. Nevertheless, R-gene identification from wild species and close relatives of plants is not only a difficult but also a cumbersome process. In this study, ResCap, a support vector machine-based high-throughput R-gene prediction and probe generation pipeline has been developed to generate probes from genomic datasets. ResCap contains two integral modules. The first module identifies the R-genes and R-gene like sequences under four categories containing different domains such as TIR-NBS-LRR (TNL), CC-NBS-LRR (CNL), Receptor-like kinase (RLK) and Receptor-like proteins (RLPs). The second module generates probes from extracted nucleotide sequences of resistance genes to conduct sequence capture (SeqCap) experiments. For the validation of ResCap pipeline, ResCap generated probes were synthesized and a sequence capture experiment was performed to capture expressed resistance genes among six spring barley genotypes. The developed ResCap pipeline in combination with the performed sequence capture experiment has shown to increase precision of R-gene identification while simultaneously allowing rapid gene validation including non-sequenced plants. Availability and implementation: The ResCap pipeline is available at http://rescap.ltj.slu.se/ResCap/. Contact: sandeep.kushwaha@slu.se or sandeep@niab.org.in. Supplementary information: Supplementary materials are available at
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