- Landscape of gene expression of Tomato.
- Genotype and tissue specific heat responsive genes patterns
- Candidate gene selection
- Co-expression of candidate genes for their co regulation
- Conserved candidate genes selection by phylogenetic profiling
- Functional characterization of candidate genes
RNA samples collected from GEO with a diverse combination of
- 17 genotypes of Tomato
- 7 tissue types
- 3 level of heat treatments with respective controls
- Different duration of heats
inputs/master.table.csv contains all details information of samples, SRA, genotype, tissues and stress.
Downloading, quality checking and mapping was done by using https://github.com/NAMlab/rnaseq-mapper tool.
Co-evolution profil was analysed by following Hogprof (https://github.com/DessimozLab/HogProf) and OMA browser.
If you have any questions please feel free to contact with me zitunstu24@gmail.com (Abul Khayer)