Download

Download data from PlantscRNAdb

Download marker genes

Totally 26,326 marker genes from four species. (All marker genes could be download from here.)

Format of downloaded file (marker gene information) could be found here.

Species Download link DOI info Marker degree
Arabidopsis thaliana 14,922 Marker Genes DOI of references Marker degree
Oryza sativa 5,428 Marker Genes DOI of references Marker degree
Solanum lycopersicum 75 Marker Genes DOI of references NA
Zea mays 5,901 Marker Genes DOI of references Marker degree

Download expression matrix

Totally 10 datasets from three species were analyzed by our pipeline.

Format of expression matrix file could be found here.

Dataset Description Download link
GSE114615 Root tissue of Arabidopsis thaliana GSE114615.zip
GSE121619 Arabidopsis root tissue under control and heat treatment GSE121619.zip
GSE122687 Arabidopsis root tissue under control and sucrose treatment GSE122687.zip
GSE123013 Root tissue of two Arabidopsis mutants(gl2 and rhd6) and wild-type GSE123013.zip
GSE123818 Root tissue of one Arabidopsis mutants(shr) and wild-type GSE123818.zip
GSE141730 Root tissue of Arabidopsis GSE141730.zip
PRJNA517021 Root tissue of Arabidopsis PRJNA517021.zip
PRJNA577177 Cotyledons of 5-day-old Arabidopsis seedlings PRJNA577177.zip
PRJNA637882 Maize shoot stem-cell niche PRJNA637882.zip
GSE146035 Root tips of two agronomically important rice cultivars (9311 and Nipponbare) GSE146035.zip
GSE121039 Maize anther GSE121039.zip
GSE161482 Leaf tissue of Arabidopsis GSE161482.zip
PRJNA646989 &
PRJNA646996 &
PRJNA647001
Maize ears PRJNA646989_
PRJNA646996_
PRJNA647001.zip
GSE155304 Root tissue of Arabidopsis GSE155304.zip

Download R script

Count_data_analysis.r was used for arrangining and analyzing data collected by PlantscRNAdb.