Yuki Kagaya

发表

ATTED-II in 2018: A Plant Coexpression Database Based on Investigation of the Statistical Property of the Mutual Rank Index

Kengo Kinoshita, Shu Tadaka, Yuki Kagaya, 2017, Plant & cell physiology.

ContactPFP: Protein Function Prediction Using Predicted Contact Information

D. Kihara, Sean T. Flannery, Aashish Jain, 2022, Frontiers in Bioinformatics.

A novel circular ssDNA virus of the phylum Cressdnaviricota discovered in metagenomic data from otter clams (Lutraria rhynchaena)

K. Kinoshita, Oanh T. P. Kim, K. Yura, 2020, Archives of Virology.

Protein Contact Map Denoising Using Generative Adversarial Networks

Genki Terashi, Daisuke Kihara, Aashish Jain, 2020, bioRxiv.

ATTED-II in 2018: A Plant Coexpression Database Based on Investigation of the Statistical Property of the Mutual Rank Index

Kengo Kinoshita, Shu Tadaka, Yuki Kagaya, 2018, Plant & cell physiology.

COXPRESdb v7: a gene coexpression database for 11 animal species supported by 23 coexpression platforms for technical evaluation and evolutionary inference

Kengo Kinoshita, Shu Tadaka, Yuki Kagaya, 2018, Nucleic Acids Res..

Real-time structure search and structure classification for AlphaFold protein models

Charles W Christoffer, D. Kihara, Genki Terashi, 2021, Communications Biology.

COXPRESdb v8: an animal gene coexpression database navigating from a global view to detailed investigations

T. Obayashi, Yuki Kagaya, Kengo Kinoshita, 2022, Nucleic Acids Res..

ATTED-II v11: A Plant Gene Coexpression Database Using a Sample Balancing Technique by Subagging of Principal Components.

Yuichi Aoki, T. Obayashi, Yuki Kagaya, 2022, Plant & cell physiology.

MAINMASTseg: Automated Map Segmentation Method for Cryo-EM Density Maps with Symmetry

Genki Terashi, Daisuke Kihara, Yuki Kagaya, 2020, J. Chem. Inf. Model..

Protein contact map refinement for improving structure prediction using generative adversarial networks

Genki Terashi, Daisuke Kihara, Aashish Jain, 2021, Bioinform..

Domain-PFP: Protein Function Prediction Using Function-Aware Domain Embedding Representations

D. Kihara, Yuki Kagaya, Nabil Ibtehaz, 2023, bioRxiv.

Analyzing effect of quadruple multiple sequence alignments on deep learning based protein inter-residue distance prediction

Sai Raghavendra Maddhuri Venkata Subramaniya, Charles W Christoffer, D. Kihara, 2021, Scientific Reports.

AttentiveDist: Protein Inter-Residue Distance Prediction Using Deep Learning with Attention on Quadruple Multiple Sequence Alignments

Genki Terashi, Daisuke Kihara, Charles Christoffer, 2020, bioRxiv.

Domain-PFP allows protein function prediction using function-aware domain embedding representations

Yuki Kagaya, Nabil Ibtehaz, Daisuke Kihara, 2023, Communications biology.

Impact of AlphaFold on structure prediction of protein complexes: The CASP15‐CAPRI experiment

Johnathan D. Guest, Adam K. Sieradzan, Charles W Christoffer, 2023, Proteins.

NuFold: A Novel Tertiary RNA Structure Prediction Method Using Deep Learning with Flexible Nucleobase Center Representation

Xiao Wang, Yuki Kagaya, Tsukasa Nakamura, 2023, bioRxiv.