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Works (7)

DeepTPpred: A Deep Learning Approach With Matrix Factorization for Predicting Therapeutic Peptides by Integrating Length Information

IEEE Journal of Biomedical and Health Informatics
2023-09 | Journal article
Contributors: Zhen Cui; Si-Guo Wang; Ying He; Zhan-Heng Chen; Qin-Hu Zhang
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Crossref

Using Fully Convolutional Network to Locate Transcription Factor Binding Sites Based on DNA Sequence and Conservation Information

IEEE/ACM Transactions on Computational Biology and Bioinformatics
2023-09-01 | Journal article
Contributors: Qinhu Zhang; Youhong Xu; Siguo Wang; Yong Wu; Yuannong Ye; Chang-An Yuan; Valeriya Gribova; Vladimir Fedorovich Filaretov; De-Shuang Huang
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Crossref

Predicting the Sequence Specificities of DNA-Binding Proteins by DNA Fine-Tuned Language Model With Decaying Learning Rates

IEEE/ACM Transactions on Computational Biology and Bioinformatics
2023-01-01 | Journal article
Contributors: Ying He; Qinhu Zhang; Siguo Wang; Zhanheng Chen; Zhen Cui; Zhen-Hao Guo; De-Shuang Huang
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Crossref

Predicting In-Vitro DNA-Protein Binding With a Spatially Aligned Fusion of Sequence and Shape

IEEE/ACM Transactions on Computational Biology and Bioinformatics
2022-11-01 | Journal article
Contributors: Qinhu Zhang; Yindong Zhang; Siguo Wang; Zhan-Heng Chen; Valeriya Gribova; Vladimir Fedorovich Filaretov; De-Shuang Huang
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Crossref

DLoopCaller: A deep learning approach for predicting genome-wide chromatin loops by integrating accessible chromatin landscapes

PLOS Computational Biology
2022-10-07 | Journal article
Contributors: Siguo Wang; Ferhat Ay; Qinhu Zhang; Ying He; Zhen Cui; Zhenghao Guo; Kyungsook Han; De-Shuang Huang
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Crossref

FCNGRU: Locating Transcription Factor Binding Sites by Combing Fully Convolutional Neural Network With Gated Recurrent Unit

IEEE Journal of Biomedical and Health Informatics
2022-04 | Journal article
Contributors: Siguo Wang; Ying He; Zhanheng Chen; Qinhu Zhang
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Crossref

Base-resolution prediction of transcription factor binding signals by a deep learning framework

PLOS Computational Biology
2022-03-09 | Journal article
Contributors: Qinhu Zhang; Inna Lavrik; Ying He; Siguo Wang; Zhanheng Chen; Zhenhao Guo; Zhen Cui; Qi Liu; De-Shuang Huang
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Crossref