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Comprehensive review and assessment of computational methods for predicting RNA post-transcriptional modification sites from RNA sequences.
Brief Bioinform. 2020 Sep 25;21(5):1676-1696. doi: 10.1093/bib/bbz112.
Brief Bioinform. 2020.
PMID: 31714956
Review.
Computational prediction and interpretation of both general and specific types of promoters in Escherichia coli by exploiting a stacked ensemble-learning framework.
Li F, Chen J, Ge Z, Wen Y, Yue Y, Hayashida M, Baggag A, Bensmail H, Song J.
Li F, et al. Among authors: baggag a.
Brief Bioinform. 2021 Mar 22;22(2):2126-2140. doi: 10.1093/bib/bbaa049.
Brief Bioinform. 2021.
PMID: 32363397
Free PMC article.
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PROSPECT: A web server for predicting protein histidine phosphorylation sites.
Chen Z, Zhao P, Li F, Leier A, Marquez-Lago TT, Webb GI, Baggag A, Bensmail H, Song J.
Chen Z, et al. Among authors: baggag a.
J Bioinform Comput Biol. 2020 Aug;18(4):2050018. doi: 10.1142/S0219720020500183. Epub 2020 Jun 5.
J Bioinform Comput Biol. 2020.
PMID: 32501138
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Entropy, Free Energy, and Work of Restricted Boltzmann Machines.
Oh S, Baggag A, Nha H.
Oh S, et al. Among authors: baggag a.
Entropy (Basel). 2020 May 11;22(5):538. doi: 10.3390/e22050538.
Entropy (Basel). 2020.
PMID: 33286309
Free PMC article.
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OutSingle: a novel method of detecting and injecting outliers in RNA-Seq count data using the optimal hard threshold for singular values.
Salkovic E, Sadeghi MA, Baggag A, Salem AGR, Bensmail H.
Salkovic E, et al. Among authors: baggag a.
Bioinformatics. 2023 Apr 3;39(4):btad142. doi: 10.1093/bioinformatics/btad142.
Bioinformatics. 2023.
PMID: 36945891
Free PMC article.
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