CardioTF, a database of deconstructing transcriptional circuits in the heart system by Yisong Zhen

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Assessment of clusters of transcription factor binding sites in relationship to human promoter, CpG islands and gene expression by Sakaki Yoshiyuki, Kojima Toshio, Murakami Katsuhiko

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Logo2PWM: a tool to convert sequence logo to position weight matrix by Zhen Gao, Lu Liu, Jianhua Ruan

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Comparison of discriminative motif optimization using matrix and DNA shape-based models by Shuxiang Ruan, Gary D. Stormo

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Optimizing the GATA-3 position weight matrix to improve the identification of novel binding sites by Nandi Soumyadeep, Ioshikhes Ilya

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The Identification of Metal Ion Ligand-Binding Residues by Adding the Reclassified Relative Solvent Accessibility by Xiuzhen Hu, Zhenxing Feng, Xiaojin Zhang, Liu Liu, Shan Wang

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Construction of microRNA functional families by a mixture model of position weight matrices by Je-Keun Rhee, Soo-Yong Shin, Byoung-Tak Zhang

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PWM2Vec: An Efficient Embedding Approach for Viral Host Specification from Coronavirus Spike Sequences by Sarwan Ali, Babatunde Bello, Prakash Chourasia, Ria Thazhe Punathil, Yijing Zhou, Murray Patterson

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RPI-SE: a stacking ensemble learning framework for ncRNA-protein interactions prediction using sequence information by Hai-Cheng Yi, Zhu-Hong You, Mei-Neng Wang, Zhen-Hao Guo, Yan-Bin Wang, Ji-Ren Zhou

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Rigorous and thorough bioinformatic analyses of olfactory receptor promoters confirm enrichment of O/E and homeodomain binding sites but reveal no new common motifs by Young Janet M, Luche Ralf M, Trask Barbara J

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Position Weight Matrix or Acyclic Probabilistic Finite Automaton: Which model to use? A decision rule inferred for the prediction of transcription factor binding sites by Guilherme Miura Lavezzo, Marcelo de Souza Lauretto, Luiz Paulo Moura Andrioli, Ariane Machado-Lima

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MU-LOC: A Machine-Learning Method for Predicting Mitochondrially Localized Proteins in Plants by Ning Zhang, Ning Zhang, R. S. P. Rao, R. S. P. Rao, Fernanda Salvato, Jesper F. Havelund, Ian M. Møller, Jay J. Thelen, Jay J. Thelen, Dong Xu, Dong Xu, Dong Xu

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BLAMM: BLAS-based algorithm for finding position weight matrix occurrences in DNA sequences on CPUs and GPUs by Jan Fostier

Subjects: “…Position weight matrix (PWM)…”
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Quantum Algorithm for Position Weight Matrix Matching by Koichi Miyamoto, Naoki Yamamoto, Yasubumi Sakakibara

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