AIMC Topic: Genome, Plant

Clear Filters Showing 21 to 30 of 74 articles

PlantMine: A Machine-Learning Framework to Detect Core SNPs in Rice Genomics.

Genes May 9, 2024
As a fundamental global staple crop, rice plays a pivotal role in human nutrition and agricultural production systems. However, its complex genetic architecture and extensive trait variability pose challenges for breeders and researchers in optimizin...
Oryza Genome, Plant Plant Breeding Genomics Polymorphism, Single Nucleotide Machine Learning
View on PubMed DOI

Deep learning the cis-regulatory code for gene expression in selected model plants.

Nature communications Apr 25, 2024
Elucidating the relationship between non-coding regulatory element sequences and gene expression is crucial for understanding gene regulation and genetic variation. We explored this link with the training of interpretable deep learning models predict...
Deep Learning Genome, Plant Gene Expression Regulation, Plant Regulatory Sequences, Nucleic Acid Arabidopsis Sorghum Species Specificity Zea mays Solanum lycopersicum Genetic Variation
View on PubMed DOI

BreedingAIDB: A database integrating crop genome-to-phenotype paired data with machine learning tools applicable to breeding.

Plant communications Apr 3, 2024
Crops, Agricultural Genome, Plant Plant Breeding Phenotype Machine Learning Databases, Genetic
View on PubMed DOI

Marker effects and heritability estimates using additive-dominance genomic architectures via artificial neural networks in Coffea canephora.

PloS one Jan 26, 2022
Many methodologies are used to predict the genetic merit in animals and plants, but some of them require priori assumptions that may increase the complexity of the model. Artificial neural network (ANN) has advantage to not require priori assumptions...
Phenotype Genomics Polymorphism, Single Nucleotide Neural Networks, Computer Coffea Genome, Plant Models, Genetic Genetic Markers Genotype
View on PubMed DOI

Evolutionarily informed machine learning enhances the power of predictive gene-to-phenotype relationships.

Nature communications Sep 24, 2021
Inferring phenotypic outcomes from genomic features is both a promise and challenge for systems biology. Using gene expression data to predict phenotypic outcomes, and functionally validating the genes with predictive powers are two challenges we add...
Gene Expression Regulation, Plant Arabidopsis Species Specificity Genome, Plant Models, Genetic Phenotype Machine Learning Nitrogen Evolution, Molecular Transcriptome Genetic Variation Genotype Genomics Zea mays
View on PubMed DOI

Multitrait machine- and deep-learning models for genomic selection using spectral information in a wheat breeding program.

The plant genome Sep 5, 2021
Prediction of breeding values is central to plant breeding and has been revolutionized by the adoption of genomic selection (GS). Use of machine- and deep-learning algorithms applied to complex traits in plants can improve prediction accuracies. Beca...
Plant Breeding Deep Learning Genomics Triticum Genome, Plant Bayes Theorem Artificial Intelligence
View on PubMed DOI

iDNA6mA-Rice-DL: A local web server for identifying DNA N6-methyladenine sites in rice genome by deep learning method.

Journal of bioinformatics and computational biology Jul 21, 2021
Accurate detection of N6-methyladenine (6mA) sites by biochemical experiments will help to reveal their biological functions, still, these wet experiments are laborious and expensive. Therefore, it is necessary to introduce a powerful computational m...
Machine Learning DNA Oryza Deep Learning Genome, Plant
View on PubMed DOI

A convolution based computational approach towards DNA N6-methyladenine site identification and motif extraction in rice genome.

Scientific reports May 14, 2021
DNA N6-methylation (6mA) in Adenine nucleotide is a post replication modification responsible for many biological functions. Automated and accurate computational methods can help to identify 6mA sites in long genomes saving significant time and money...
Amino Acid Motifs Neural Networks, Computer Epigenesis, Genetic Oryza Epigenomics Adenine DNA Methylation Genome, Plant
View on PubMed DOI

iPTT(2 L)-CNN: A Two-Layer Predictor for Identifying Promoters and Their Types in Plant Genomes by Convolutional Neural Network.

Computational and mathematical methods in medicine Jan 5, 2021
A promoter is a short DNA sequence near to the start codon, responsible for initiating transcription of a specific gene in genome. The accurate recognition of promoters has great significance for a better understanding of the transcriptional regulati...
Species Specificity Promoter Regions, Genetic Databases, Nucleic Acid Sequence Analysis, DNA Zea mays TATA Box Genome, Plant DNA, Plant Neural Networks, Computer Computational Biology
View on PubMed DOI

Machine learning approaches for crop improvement: Leveraging phenotypic and genotypic big data.

Journal of plant physiology Dec 29, 2020
Highly efficient and accurate selection of elite genotypes can lead to dramatic shortening of the breeding cycle in major crops relevant for sustaining present demands for food, feed, and fuel. In contrast to classical approaches that emphasize the n...
Crops, Agricultural Genome, Plant Big Data Plant Breeding Genomics Genotype Machine Learning Phenotype
View on PubMed DOI
Popular Topics
Recent Journals