DNAcycP2[1]is an updated version of previously released tool DNAcycP[2] for predicting intrinsic DNA cyclizability score (C-score) defined in loop-seq assay [3]. DNAcycP2 improves over DNAcycP in further removing biotin-dependent bias in loop-seq data through data augmentation. (R package available at: https://github.com/jipingw/DNAcycP2. Python package at: https://github.com/jipingw/DNAcycP2-Python).
DNAcycP web server only allows to process only one sequence at a time no longer than 20K bp by specifying the input file in FASTA format (with sequence name line beginning with “>”) or pasting the sequence into the text box below (without sequence name line).
References:
[1] Kendall, B., Jin, C., Li, K., Ruan, F., Wang, X.A., and Wang, J.-P. (2025), DNAcycP2: improved estimation of intrinsic DNA cyclizability through data augmentation, Nucleic Acids Research, in press.
[2] Li, K., Carroll, M., Vafabakhsh, R., Wang, X, and Wang, J.-P. (2021) DNAcycP: A Deep Learning Tool for DNA Cyclizability Prediction. Nucleic Acids Research, DOI: 10.1093/nar/gkac162
[3] Basu, A., Bobrovnikov, D.G., Qureshi, Z., Kayikcioglu, T., Ngo, T.T.M., Ranjan, A., Eustermann, S., Cieza, B., Morgan, M.T., Hejna, M. et al. (2021) Measuring DNA mechanics on the genome scale. Nature, 589, 462-467.