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Outcomes of the EMDataResource Cryo-EM Ligand Modeling Challenge.
Res Sq [Preprint]. 2024 Jan 25:rs.3.rs-3864137. doi: 10.21203/rs.3.rs-3864137/v1.
Res Sq. 2024.
PMID: 38343795
Free PMC article.
Preprint.
Enhancing cryo-EM maps with 3D deep generative networks for assisting protein structure modeling.
Maddhuri Venkata Subramaniya SR, Terashi G, Kihara D.
Maddhuri Venkata Subramaniya SR, et al.
Bioinformatics. 2023 Aug 1;39(8):btad494. doi: 10.1093/bioinformatics/btad494.
Bioinformatics. 2023.
PMID: 37549063
Free PMC article.
Item in Clipboard
Residue-wise local quality estimation for protein models from cryo-EM maps.
Terashi G, Wang X, Maddhuri Venkata Subramaniya SR, Tesmer JJG, Kihara D.
Terashi G, et al. Among authors: maddhuri venkata subramaniya sr.
Nat Methods. 2022 Sep;19(9):1116-1125. doi: 10.1038/s41592-022-01574-4. Epub 2022 Aug 11.
Nat Methods. 2022.
PMID: 35953671
Free PMC article.
Item in Clipboard
Detecting protein and DNA/RNA structures in cryo-EM maps of intermediate resolution using deep learning.
Wang X, Alnabati E, Aderinwale TW, Maddhuri Venkata Subramaniya SR, Terashi G, Kihara D.
Wang X, et al. Among authors: maddhuri venkata subramaniya sr.
Nat Commun. 2021 Apr 16;12(1):2302. doi: 10.1038/s41467-021-22577-3.
Nat Commun. 2021.
PMID: 33863902
Free PMC article.
Item in Clipboard
Analyzing effect of quadruple multiple sequence alignments on deep learning based protein inter-residue distance prediction.
Jain A, Terashi G, Kagaya Y, Maddhuri Venkata Subramaniya SR, Christoffer C, Kihara D.
Jain A, et al. Among authors: maddhuri venkata subramaniya sr.
Sci Rep. 2021 Apr 7;11(1):7574. doi: 10.1038/s41598-021-87204-z.
Sci Rep. 2021.
PMID: 33828153
Free PMC article.
Item in Clipboard
Protein contact map refinement for improving structure prediction using generative adversarial networks.
Maddhuri Venkata Subramaniya SR, Terashi G, Jain A, Kagaya Y, Kihara D.
Maddhuri Venkata Subramaniya SR, et al.
Bioinformatics. 2021 Oct 11;37(19):3168-3174. doi: 10.1093/bioinformatics/btab220.
Bioinformatics. 2021.
PMID: 33787852
Free PMC article.
Item in Clipboard
Performance and enhancement of the LZerD protein assembly pipeline in CAPRI 38-46.
Christoffer C, Terashi G, Shin WH, Aderinwale T, Maddhuri Venkata Subramaniya SR, Peterson L, Verburgt J, Kihara D.
Christoffer C, et al. Among authors: maddhuri venkata subramaniya sr.
Proteins. 2020 Aug;88(8):948-961. doi: 10.1002/prot.25850. Epub 2019 Nov 25.
Proteins. 2020.
PMID: 31697428
Free PMC article.
Item in Clipboard
Protein secondary structure detection in intermediate-resolution cryo-EM maps using deep learning.
Maddhuri Venkata Subramaniya SR, Terashi G, Kihara D.
Maddhuri Venkata Subramaniya SR, et al.
Nat Methods. 2019 Sep;16(9):911-917. doi: 10.1038/s41592-019-0500-1. Epub 2019 Jul 29.
Nat Methods. 2019.
PMID: 31358979
Free PMC article.
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