PlantscRNAdb

Manual of PlantscRNAdb

Last modified at 2023-08-15

Home page

Home page displays the introduction of PlantscRNAdb, as well as release information, citation informstion and informstion of visitors.

Statistic page

Serach page

At the search page, users can search PlantscRNAdb by both cell type or marker gene. For searching by cell type, users should select specie, tissue and cell type. Then click the submit button and the result information will displayed at a new page.

For searching by marker gene, users should select species and input name of marker gene. Then click the submit button and the result information will displayed at a new page.

Spatial page

At the Spatial page, users can browse marker genes from the spatial transcriptome of Arabidopsis thaliana, Oryza sativa, Glycine max and Phalaenopsis aphrodite.

BLAST page

At the BLAST page, users can search PlantscRNAdb by sequences. Input protein sequence and select species ang E-value, users can find the BLASTP result at a new page.

JBrowse page

At the JBrowse page, users can browse the expression of different cell types genome-wide by selecting specie and input genomic location.

Reference page

Reference page displays the datasets usedd by PlantscRNAdb.

Download page

Download page displays all the data could be downloaded and used from PlantscRNAdb.

Other information

Format of expression matrix file
Shown as the following figure (original figure)

Format of marker gene information file

Column	Description
1	Gene name
2	Gene alias
3	Species
4	If marker gene
5	Tissue
6	Cell type