Resources

Brief Description

Click on the “Resources” link in the main menu to view training data statistics, quality control information, and model evaluation results. In addition, we provide links to download the reference genomes, the trained models and files for training models.

Please note: We are still analyzing the ATAC-seq data we generated from multiple tissues of grass species. We have provided lists of OCRs obtained from these ATAC-seq data so that researchers can use it to reproduce the results of PlantDeepSEA. However, please do not use these lists for genome-scale analyses, until the publication of our article on data analysis (by May 2022 at the latest). Or contact us for permission. Users who download data from this site are considered to have accepted this statement.

Reference Genome Information

variety

Species

Version

Reference link

Arabidopsis

Arabidopsis thaliana

TAIR10.1

Download link

Rice

Oryza sativa

MSU v7.0

Download link

Brachypodium

Brachypodium distachyon

Bd21-3 v1.1

Download link

Foxtail millet

Setaria italica

v2.0

Download link

Sorghum

Sorghum bicolor

v3.1.1

Download link

Mazie

Zea mays

AGPv4

Download link

Trained model

variety

Reference link

Arabidopsis

Download link

Zhenshan 97

Download link

Minghui 63

Download link

Brachypodium

Download link

Foxtail millet

Download link

Sorghum

Download link

Mazie

Download link

Training data

variety

Reference link

Arabidopsis

Download link

Zhenshan 97

Download link

Minghui 63

Download link

Brachypodium

Download link

Foxtail millet

Download link

Sorghum

Download link

Mazie

Download link

Training config files

variety

Reference link

Arabidopsis

Download link

Zhenshan 97

Download link

Minghui 63

Download link

Brachypodium

Download link

Foxtail millet

Download link

Sorghum

Download link

Mazie

Download link

Model structure

model name

Reference link

DeeperDeepSEA

Download link

This model structure is Selene’s DeeperDeepSEA structure .