深度CCR：基于大规模基因组学的深度学习方法用于改良水稻育种 - Suppr

DeepCCR: large-scale genomics-based deep learning method for improving rice breeding.

作者信息

Ma Xiaoding, Wang Hao, Wu Shengyang, Han Bing, Cui Di, Liu Jin, Zhang Qiang, Xia Xiuzhong, Song Peng, Tang Cuifeng, Geng Leiyue, Yang Yaolong, Yan Shen, Zhou Kunneng, Han Longzhi

机构信息

State Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China.

Bokaisen Biotechnology Ltd., Beijing, China.

出版信息

Plant Biotechnol J. 2024 Oct;22(10):2691-2693. doi: 10.1111/pbi.14384. Epub 2024 May 28.

DOI:10.1111/pbi.14384

PMID:38805625

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11536438/

Abstract

摘要

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/3b3e/11536438/025ce3c3d0ac/PBI-22-2691-g001.jpg

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DeepCCR: large-scale genomics-based deep learning method for improving rice breeding.

作者信息

Ma Xiaoding, Wang Hao, Wu Shengyang, Han Bing, Cui Di, Liu Jin, Zhang Qiang, Xia Xiuzhong, Song Peng, Tang Cuifeng, Geng Leiyue, Yang Yaolong, Yan Shen, Zhou Kunneng, Han Longzhi

机构信息

State Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing, China.

Bokaisen Biotechnology Ltd., Beijing, China.

出版信息

Plant Biotechnol J. 2024 Oct;22(10):2691-2693. doi: 10.1111/pbi.14384. Epub 2024 May 28.

DOI:10.1111/pbi.14384

PMID:38805625

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11536438/

Abstract

摘要

相似文献

DeepCCR: large-scale genomics-based deep learning method for improving rice breeding.

Plant Biotechnol J. 2024 Oct;22(10):2691-2693. doi: 10.1111/pbi.14384. Epub 2024 May 28.

TrG2P: A transfer-learning-based tool integrating multi-trait data for accurate prediction of crop yield.

Plant Commun. 2024 Jul 8;5(7):100975. doi: 10.1016/j.xplc.2024.100975. Epub 2024 May 15.

PLoS Genet. 2015 Feb 17;11(2):e1004982. doi: 10.1371/journal.pgen.1004982. eCollection 2015 Feb.

DNNGP, a deep neural network-based method for genomic prediction using multi-omics data in plants.

Mol Plant. 2023 Jan 2;16(1):279-293. doi: 10.1016/j.molp.2022.11.004. Epub 2022 Nov 10.

Automated Counting Grains on the Rice Panicle Based on Deep Learning Method.

Sensors (Basel). 2021 Jan 4;21(1):281. doi: 10.3390/s21010281.

Residual network improves the prediction accuracy of genomic selection.

Anim Genet. 2024 Aug;55(4):599-611. doi: 10.1111/age.13445. Epub 2024 May 15.

Large-scale genomic and phenomic analyses of modern cultivars empower future rice breeding design.

Mol Plant. 2025 Apr 7;18(4):651-668. doi: 10.1016/j.molp.2025.03.007. Epub 2025 Mar 13.

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BMC Bioinformatics. 2019 Nov 22;20(Suppl 9):337. doi: 10.1186/s12859-019-2927-x.

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Biotechnol Adv. 2013 Dec;31(8):1308-18. doi: 10.1016/j.biotechadv.2013.05.004. Epub 2013 May 20.

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Biology (Basel). 2021 Jul 20;10(7):689. doi: 10.3390/biology10070689.

引用本文的文献

PhytoCluster: a generative deep learning model for clustering plant single-cell RNA-seq data.

aBIOTECH. 2025 Feb 20;6(2):189-201. doi: 10.1007/s42994-025-00196-6. eCollection 2025 Jun.

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Plant Methods. 2025 May 16;21(1):62. doi: 10.1186/s13007-025-01383-8.

Advances in multi-trait genomic prediction approaches: classification, comparative analysis, and perspectives.

Brief Bioinform. 2025 May 1;26(3). doi: 10.1093/bib/bbaf211.

Rice3KGS: A powerful web platform and database for large-scale genome selection.

Plant Commun. 2025 Aug 11;6(8):101369. doi: 10.1016/j.xplc.2025.101369. Epub 2025 May 9.

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J Integr Plant Biol. 2025 Jul;67(7):1700-1705. doi: 10.1111/jipb.13914. Epub 2025 Apr 14.

Transcriptomic analysis of two Chinese wheat landraces with contrasting Fusarium head blight resistance reveals miRNA-mediated defense mechanisms.

Front Plant Sci. 2025 Feb 28;16:1537605. doi: 10.3389/fpls.2025.1537605. eCollection 2025.

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Plant Biotechnol J. 2025 Apr;23(4):1190-1201. doi: 10.1111/pbi.14577. Epub 2025 Feb 14.

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Plant Methods. 2025 Feb 5;21(1):12. doi: 10.1186/s13007-024-01321-0.

BreCML: identifying breast cancer cell state in scRNA-seq via machine learning.

Front Med (Lausanne). 2024 Nov 6;11:1482726. doi: 10.3389/fmed.2024.1482726. eCollection 2024.

Big data and artificial intelligence-aided crop breeding: Progress and prospects.

J Integr Plant Biol. 2025 Mar;67(3):722-739. doi: 10.1111/jipb.13791. Epub 2024 Oct 28.

本文引用的文献

Multi-omics assists genomic prediction of maize yield with machine learning approaches.

Mol Breed. 2024 Feb 8;44(2):14. doi: 10.1007/s11032-024-01454-z. eCollection 2024 Feb.

Integration of genomic selection with doubled-haploid evaluation in hybrid breeding: From GS 1.0 to GS 4.0 and beyond.

Mol Plant. 2022 Apr 4;15(4):577-580. doi: 10.1016/j.molp.2022.02.005. Epub 2022 Feb 8.

Genomic variation in 3,010 diverse accessions of Asian cultivated rice.

Nature. 2018 May;557(7703):43-49. doi: 10.1038/s41586-018-0063-9. Epub 2018 Apr 25.

Genomic prediction contributing to a promising global strategy to turbocharge gene banks.

Nat Plants. 2016 Oct 3;2:16150. doi: 10.1038/nplants.2016.150.

DeepCCR: large-scale genomics-based deep learning method for improving rice breeding.

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