MaizeStressDB is a data exploration tool that provides access to a collection of 120 samples expression profiles across 10-time points under three stresses (Cold, Dry, Heat) from Maize leaf.
This section has four tabs and an input panel to the right. You can use the input panel to filter out the data and limit it to only certain genes of interest.
[EXPRESSION]: The row counts of the genes in the different replicates and treatments.
[HEATMAP]: The row counts heatmaps.
[TIME-SERIES]: The box plot of the normalized counts over time.
[CORRELATION]: gene-gene correlation.
This section has six tabs and an input panel to the right. You can use the input panel to filter out the data and limit it to only certain genes of interest.
[Table]: This table contains the output of DEGs analysis where the expression profiles of genes in different conditions were compared to the control over the ten-time points.
[HEATMAP]: The LogeFoldChange Heatmap of genes during the time in different conditions.
[PCA]: The user can see how the expression data clusters for the inputted genes. There is also a choice of using UMAP.
[VENN]: In this tab, you can see the distribution among the three treatments.
[GENE-ID MAPPING]: Here you can map gene IDs from other Maize genomes to the current genome version 5.
[GO ENRICH]: Perform gene ontology enrichment on your list of genes.
This section allows you to explore the network analysis performed for this dataset it contains 3 main tabs:
[CORRELATION NETWORKS]: The gene correlation network, these networks are extracted as gene modules enriched in specific conditions.
[GCN&GRN]: we extract both the gene correlation network (GCN) as modules that are enriched on some specific condition and the gene regulatory network (GRN), then we map the gene from the modules of interest to the GRN to get the module sub-GRN. Use the drop-down menu to navigate through the module based on the condition they were enriched on.
[DEGS GRN]: mapping the differential expressed genes (DEGs) into the GRN. Use the drop-down menu to navigate between conditions.
All three tabs have a control panel on the left side to better interact with the networks. You enable/Disable network physics. Use the [Fit Network] button to fit the network to the center. The two slide bars [Width] and [Height] allow control of the network canvas size.
| OS | Version | Chrome | Firefox | Microsoft Edge | Safari |
|---|---|---|---|---|---|
| Linux | Ubuntu | Compatible | Compatible | n/a | n/a |
| MacOS | Big Sur | Compatible | Compatible | not tested | Compatible |
| Windows | 10 | Compatible | Compatible | not tested | n/a |
* If you want to contact us regarding MaizeStressDB, please contact us in the following order:
The program is freely available for academic purposes.