DeepSTF: predicting transcription factor binding sites by interpretable deep neural networks combining sequence and shape
P Ding, Y Wang, X Zhang, X Gao, G Liu… - Briefings in …, 2023 - academic.oup.com
Precise targeting of transcription factor binding sites (TFBSs) is essential to comprehending
transcriptional regulatory processes and investigating cellular function. Although several …
transcriptional regulatory processes and investigating cellular function. Although several …
TBCA: Prediction of transcription factor binding sites using a deep neural network with lightweight attention mechanism
X Wang, L Qiao, P Qu, Q Yang - IEEE Journal of Biomedical …, 2024 - ieeexplore.ieee.org
The identification of transcription factor binding sites (TFBSs) is crucial for understanding the
regulatory mechanisms of gene expression, which contributes to unraveling cellular …
regulatory mechanisms of gene expression, which contributes to unraveling cellular …
A novel convolution attention model for predicting transcription factor binding sites by combination of sequence and shape
Y Zhang, Z Wang, Y Zeng, Y Liu, S Xiong… - Briefings in …, 2022 - academic.oup.com
The discovery of putative transcription factor binding sites (TFBSs) is important for
understanding the underlying binding mechanism and cellular functions. Recently, many …
understanding the underlying binding mechanism and cellular functions. Recently, many …
An integrative framework for combining sequence and epigenomic data to predict transcription factor binding sites using deep learning
F Jing, SW Zhang, Z Cao… - IEEE/ACM transactions on …, 2019 - ieeexplore.ieee.org
Knowing the transcription factor binding sites (TFBSs) is essential for modeling the
underlying binding mechanisms and follow-up cellular functions. Convolutional neural …
underlying binding mechanisms and follow-up cellular functions. Convolutional neural …
Predicting transcription factor binding sites using DNA shape features based on shared hybrid deep learning architecture
The study of transcriptional regulation is still difficult yet fundamental in molecular biology
research. Recent research has shown that the double helix structure of nucleotides plays an …
research. Recent research has shown that the double helix structure of nucleotides plays an …
Base-resolution prediction of transcription factor binding signals by a deep learning framework
Transcription factors (TFs) play an important role in regulating gene expression, thus the
identification of the sites bound by them has become a fundamental step for molecular and …
identification of the sites bound by them has become a fundamental step for molecular and …
Cooperation of local features and global representations by a dual-branch network for transcription factor binding sites prediction
Y Yu, P Ding, H Gao, G Liu, F Zhang… - Briefings in …, 2023 - academic.oup.com
Interactions between DNA and transcription factors (TFs) play an essential role in
understanding transcriptional regulation mechanisms and gene expression. Due to the large …
understanding transcriptional regulation mechanisms and gene expression. Due to the large …
High-resolution transcription factor binding sites prediction improved performance and interpretability by deep learning method
Transcription factors (TFs) are essential proteins in regulating the spatiotemporal expression
of genes. It is crucial to infer the potential transcription factor binding sites (TFBSs) with high …
of genes. It is crucial to infer the potential transcription factor binding sites (TFBSs) with high …
Locating transcription factor binding sites by fully convolutional neural network
Transcription factors (TFs) play an important role in regulating gene expression, thus
identification of the regions bound by them has become a fundamental step for molecular …
identification of the regions bound by them has become a fundamental step for molecular …
Prediction of transcription factor binding sites using a combined deep learning approach
L Cao, P Liu, J Chen, L Deng - Frontiers in Oncology, 2022 - frontiersin.org
In the process of regulating gene expression and evolution, such as DNA replication and
mRNA transcription, the binding of transcription factors (TFs) to TF binding sites (TFBS) …
mRNA transcription, the binding of transcription factors (TFs) to TF binding sites (TFBS) …
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