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Bioinformatics in Agriculture
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QGIS
Geographic Information System software used for spatial analysis of agricultural fields and crop management.
BLAST (Basic Local Alignment Search Tool)
Used to find regions of local similarity between sequences, which helps in identifying gene sequences and their functions in crops.
PLINK
A tool for genome association studies which is utilized in the analysis of large datasets to find genetic markers linked with agricultural traits.
KEGG (Kyoto Encyclopedia of Genes and Genomes)
A database resource for understanding high-level functions and utilities of the biological system in crop plants.
Genome-wide selection (GWS)
A method to predict the breeding values of individuals in a population, thus improving the selection process in plant breeding.
Metagenomics
The study of genetic material recovered directly from environmental samples, which aids in understanding the microbiome associated with plant health.
Phenome Networks
A platform for phenotype to genotype analysis which supports breeding decisions and the mapping of traits.
Microarrays
A tool for analysing gene expression levels in plants, it can be used for profiling gene expression under different conditions to assist in breeding programs.
CRISPR-Cas9
A genome editing tool that modifies plant genomes for crop improvement, disease resistance, and trait selection.
SNP genotyping
The measurement of genetic variations that can be used to study complex traits in crops and livestock.
RNA-Seq
A sequencing method for transcriptome profiling that helps in identifying gene expression patterns in plants under various conditions.
Gene Ontology (GO)
A bioinformatics initiative that provides a controlled vocabulary to describe gene and gene product attributes in any organism which is significant in identifying potential genes associated with agronomic traits.
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