Si D - Search Results

1

Modeling Beta-Traces for Beta-Barrels from Cryo-EM Density Maps.

Si D, He J. Si D, et al. Biomed Res Int. 2017;2017:1793213. doi: 10.1155/2017/1793213. Epub 2017 Jan 10. Biomed Res Int. 2017. PMID: 28164115 Free PMC article.

2

A machine learning approach for the identification of protein secondary structure elements from electron cryo-microscopy density maps.

Si D, Ji S, Nasr KA, He J. Si D, et al. Biopolymers. 2012 Sep;97(9):698-708. doi: 10.1002/bip.22063. Biopolymers. 2012. PMID: 22696406

3

Improved efficiency in cryo-EM secondary structure topology determination from inaccurate data.

Biswas A, Si D, Al Nasr K, Ranjan D, Zubair M, He J. Biswas A, et al. Among authors: si d. J Bioinform Comput Biol. 2012 Jun;10(3):1242006. doi: 10.1142/S0219720012420061. J Bioinform Comput Biol. 2012. PMID: 22809382

4

Estimating loop length from CryoEM images at medium resolutions.

McKnight A, Si D, Al Nasr K, Chernikov A, Chrisochoides N, He J. McKnight A, et al. Among authors: si d. BMC Struct Biol. 2013;13 Suppl 1(Suppl 1):S5. doi: 10.1186/1472-6807-13-S1-S5. Epub 2013 Nov 8. BMC Struct Biol. 2013. PMID: 24565041 Free PMC article.

5

Tracing beta strands using StrandTwister from cryo-EM density maps at medium resolutions.

Si D, He J. Si D, et al. Structure. 2014 Nov 4;22(11):1665-76. doi: 10.1016/j.str.2014.08.017. Epub 2014 Oct 9. Structure. 2014. PMID: 25308866 Free article.

6

Combining image processing and modeling to generate traces of beta-strands from cryo-EM density images of beta-barrels.

Si D, He J. Si D, et al. Annu Int Conf IEEE Eng Med Biol Soc. 2014;2014:3941-4. doi: 10.1109/EMBC.2014.6944486. Annu Int Conf IEEE Eng Med Biol Soc. 2014. PMID: 25570854

7

Beta-Barrel Detection for Medium Resolution Cryo-Electron Microscopy Density Maps Using Genetic Algorithms and Ray Tracing.

Ng A, Si D. Ng A, et al. Among authors: si d. J Comput Biol. 2018 Mar;25(3):326-336. doi: 10.1089/cmb.2017.0155. Epub 2017 Oct 16. J Comput Biol. 2018. PMID: 29035579

8

Deep Convolutional Neural Networks for Detecting Secondary Structures in Protein Density Maps from Cryo-Electron Microscopy.

Li R, Si D, Zeng T, Ji S, He J. Li R, et al. Among authors: si d. Proceedings (IEEE Int Conf Bioinformatics Biomed). 2016 Dec;2016:41-46. doi: 10.1109/BIBM.2016.7822490. Epub 2017 Jan 19. Proceedings (IEEE Int Conf Bioinformatics Biomed). 2016. PMID: 29770260 Free PMC article.

9

Deep Learning for Validating and Estimating Resolution of Cryo-Electron Microscopy Density Maps ^†.

Avramov TK, Vyenielo D, Gomez-Blanco J, Adinarayanan S, Vargas J, Si D. Avramov TK, et al. Among authors: si d. Molecules. 2019 Mar 26;24(6):1181. doi: 10.3390/molecules24061181. Molecules. 2019. PMID: 30917528 Free PMC article.

10

Deep Learning to Predict Protein Backbone Structure from High-Resolution Cryo-EM Density Maps.

Si D, Moritz SA, Pfab J, Hou J, Cao R, Wang L, Wu T, Cheng J. Si D, et al. Sci Rep. 2020 Mar 9;10(1):4282. doi: 10.1038/s41598-020-60598-y. Sci Rep. 2020. PMID: 32152330 Free PMC article.

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