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Contact usRNA structure datasets
Ready to download eSHAPE data for AI success
RNA secondary structure plays a crucial role in RNA biology and the success of therapeutics. Traditional structure prediction models, which rely solely on sequence data, often overlook the impact of cellular factors, limiting their accuracy for drug development.
To enhance AI-driven drug discovery and support research in structural biology, we have generated ready to download datasets of experimentally validated RNA structures in various cell lines and tissues with our eSHAPE assay. Need something specific? We also offer custom datasets tailored to your chosen cell type or tissue for your research or drug development needs.
Assay:
eSHAPE
Available datasets:
Immortalized cells, tissues, custom
Use cases:
AI model training, drug design, basic research
Accelerate AI-Driven Drug Development
Our ready to download datasets of experimentally determined RNA accessibility from immortalized cell lines and human tissues provide the foundation you need for breakthrough discoveries.
Need a dataset not listed? We can generate custom datasets to meet your specific needs. Custom data can be exclusive to you, ensuring that your AI models have the unique insights required for success.
Access the data today to power your drug development and research programs.
Replicable data, actionable data
Each eSHAPE dataset is a complete package, from raw sequencing data to secondary analyses. The sequencing files and aligned data are ready for input into machine learning algorithms, while the secondary analyses provide you with an overview of the data quality and insights into the biology of the system.
Explore the data with interactive reports
To get to actionable insights faster, we have generated interactive reports for every covered gene in the transcriptome. These reports include tables and interactive plots for data exploration.
Example of our eSHAPE report which includes interactive plots and searchable tables.
Determine RNA structure
eSHAPE reactivity is a measure of how much a nucleotide is able to react with the chemical probe we use to determine RNA structure, where increased reactivity indicates an increased probability that the nucleotide is unpaired. This reactivity can be used as an input to RNA folding algorithms to guide the folding to a more accurate final structure.
eSHAPE-supported structure of a gene in the context of cellular factors such as RNA-binding proteins.
Find protein binding
For most datasets we have performed both in vitro (without cellular factors) and in cellulo (with cellular factors) eSHAPE. By comparing the reactivity of nucleotides in cells versus the in vitro reactivity, we can detect bases that directly interact with RNA-binding proteins (RBPs).
eSHAPE-based identification of protein binding sites on the gene FTL that are known to be bound by the RBP IRP1.