default search action
Daisuke Kihara
Person information
Refine list
refinements active!
zoomed in on ?? of ?? records
view refined list in
export refined list as
showing all ?? records
2020 – today
- 2024
- [i9]Nabil Ibtehaz, Ning Yan, Masood S. Mortazavi, Daisuke Kihara:
ACC-ViT : Atrous Convolution's Comeback in Vision Transformers. CoRR abs/2403.04200 (2024) - [i8]Nabil Ibtehaz, Ning Yan, Masood S. Mortazavi, Daisuke Kihara:
Fusion of regional and sparse attention in Vision Transformers. CoRR abs/2406.08859 (2024) - [i7]Haoran Li, Xingjian Li, Jiahua Shi, Huaming Chen, Bo Du, Daisuke Kihara, Johan Barthelemy, Jun Shen, Min Xu:
Vox-UDA: Voxel-wise Unsupervised Domain Adaptation for Cryo-Electron Subtomogram Segmentation with Denoised Pseudo Labeling. CoRR abs/2406.18610 (2024) - 2023
- [j55]Sai Raghavendra Maddhuri Venkata Subramaniya, Genki Terashi, Daisuke Kihara
:
Enhancing cryo-EM maps with 3D deep generative networks for assisting protein structure modeling. Bioinform. 39(8) (2023) - [j54]Daisuke Kihara:
Editorial: Expert opinions in protein bioinformatics: 2022. Frontiers Bioinform. 3 (2023) - [c15]Nabil Ibtehaz
ACC-UNet: A Completely Convolutional UNet Model for the 2020s. MICCAI (3) 2023: 692-702 - [i6]Nabil Ibtehaz, Daisuke Kihara:
ACC-UNet: A Completely Convolutional UNet model for the 2020s. CoRR abs/2308.13680 (2023) - 2022
- [j53]Luca Gagliardi
SHREC 2022: Protein-ligand binding site recognition. Comput. Graph. 107: 20-31 (2022) - [j52]Yuki Kagaya, Sean Flannery, Aashish Jain, Daisuke Kihara:
ContactPFP: Protein Function Prediction Using Predicted Contact Information. Frontiers Bioinform. 2 (2022) - [j51]Xiao Wang, Mizuho Kittaka
OC_Finder: Osteoclast Segmentation, Counting, and Classification Using Watershed and Deep Learning. Frontiers Bioinform. 2 (2022) - [j50]Lyman Monroe
Using steered molecular dynamic tension for assessing quality of computational protein structure models. J. Comput. Chem. 43(17): 1140-1150 (2022) - [c14]Xiao Wang, Haoqi Fan, Yuandong Tian, Daisuke Kihara, Xinlei Chen:
On the Importance of Asymmetry for Siamese Representation Learning. CVPR 2022: 16549-16558 - [i5]Ilja Gubins, Marten L. Chaillet, Gijs van der Schot, M. Cristina Trueba, Remco C. Veltkamp, Friedrich Förster, Xiao Wang, Daisuke Kihara, Emmanuel Moebel, Nguyen P. Nguyen, Tommi A. White, Filiz Bunyak, Giorgos Papoulias, Stavros Gerolymatos, Evangelia I. Zacharaki, Konstantinos Moustakas, Xiangrui Zeng, Sinuo Liu, Min Xu, Yaoyu Wang, Cheng Chen, Xuefeng Cui, Fa Zhang:
SHREC 2021: Classification in cryo-electron tomograms. CoRR abs/2203.10035 (2022) - [i4]Xiao Wang, Haoqi Fan, Yuandong Tian, Daisuke Kihara, Xinlei Chen:
On the Importance of Asymmetry for Siamese Representation Learning. CoRR abs/2204.00613 (2022) - 2021
- [j49]Sai Raghavendra Maddhuri Venkata Subramaniya, Genki Terashi, Aashish Jain, Yuki Kagaya, Daisuke Kihara
Protein contact map refinement for improving structure prediction using generative adversarial networks. Bioinform. 37(19): 3168-3174 (2021) - [j48]Andrea Raffo
SHREC 2021: Retrieval and classification of protein surfaces equipped with physical and chemical properties. Comput. Graph. 99: 1-21 (2021) - [j47]Takaharu Mori
Efficient Flexible Fitting Refinement with Automatic Error Fixing for De Novo Structure Modeling from Cryo-EM Density Maps. J. Chem. Inf. Model. 61(7): 3516-3528 (2021) - [j46]Charles Christoffer, Siyang Chen, Vijay Bharadwaj, Tunde Aderinwale, Vidhur Kumar, Matin Hormati, Daisuke Kihara
LZerD webserver for pairwise and multiple protein-protein docking. Nucleic Acids Res. 49(Webserver-Issue): 359-365 (2021) - [j45]Xiao Wang
EnAET: A Self-Trained Framework for Semi-Supervised and Supervised Learning With Ensemble Transformations. IEEE Trans. Image Process. 30: 1639-1647 (2021) - [c13]Ilja Gubins, Marten L. Chaillet, Gijs van der Schot, M. Cristina Trueba, Remco C. Veltkamp, Friedrich Förster, Xiao Wang, Daisuke Kihara, Emmanuel Moebel, Nguyen P. Nguyen, Tommi A. White, Filiz Bunyak
SHREC 2021: Classification in Cryo-electron Tomograms. 3DOR 2021: 5-17 - [c12]Florent Langenfeld, Tunde Aderinwale, Charles Christoffer, Woong-Hee Shin, Genki Terashi, Xiao Wang, Daisuke Kihara, Halim Benhabiles
SHREC 2021: Surface-based Protein Domains Retrieval. 3DOR 2021: 19-26 - 2020
- [j44]Xiao Wang
Protein docking model evaluation by 3D deep convolutional neural networks. Bioinform. 36(7): 2113-2118 (2020) - [j43]Florent Langenfeld
SHREC 2020: Multi-domain protein shape retrieval challenge. Comput. Graph. 91: 189-198 (2020) - [j42]Ilja Gubins, Marten L. Chaillet
SHREC 2020: Classification in cryo-electron tomograms. Comput. Graph. 91: 279-289 (2020) - [j41]Genki Terashi, Yuki Kagaya, Daisuke Kihara
MAINMASTseg: Automated Map Segmentation Method for Cryo-EM Density Maps with Symmetry. J. Chem. Inf. Model. 60(5): 2634-2643 (2020) - [j40]Julian S. Deville, Daisuke Kihara, Atilla Sit
2DKD: a toolkit for content-based local image search. Source Code Biol. Medicine 15(1) (2020) - [c11]Tuan Manh Lai, Quan Hung Tran, Trung Bui, Daisuke Kihara:
A Simple But Effective Bert Model for Dialog State Tracking on Resource-Limited Systems. ICASSP 2020: 8034-8038 - [p1]Genki Terashi, Charles Christoffer, Daisuke Kihara:
Path-LZerD: Predicting Assembly Order of Multimeric Protein Complexes. Protein-Protein Interaction Networks 2020: 95-112
2010 – 2019
- 2019
- [j39]Aashish Jain, Daisuke Kihara
Phylo-PFP: improved automated protein function prediction using phylogenetic distance of distantly related sequences. Bioinform. 35(5): 753-759 (2019) - [j38]Ishita K. Khan, Aashish Jain, Reda Rawi, Halima Bensmail, Daisuke Kihara
Prediction of protein group function by iterative classification on functional relevance network. Bioinform. 35(8): 1388-1394 (2019) - [j37]Woong-Hee Shin
Predicting binding poses and affinity ranking in D3R Grand Challenge using PL-PatchSurfer2.0. J. Comput. Aided Mol. Des. 33(12): 1083-1094 (2019) - [j36]Xusi Han, Atilla Sit
A global map of the protein shape universe. PLoS Comput. Biol. 15(4) (2019) - [j35]Atilla Sit, Woong-Hee Shin
Three-dimensional Krawtchouk descriptors for protein local surface shape comparison. Pattern Recognit. 93: 534-545 (2019) - [c10]Florent Langenfeld
Protein Shape Retrieval Contest. 3DOR@Eurographics 2019: 25-31 - [c9]Ilja Gubins, Gijs van der Schot, Remco C. Veltkamp, Friedrich Förster
Classification in Cryo-Electron Tomograms. 3DOR@Eurographics 2019: 49-54 - [c8]Manuel Zumbado Corrales, Luis Castillo-Valverde, José Salas-Bonilla, Julio Víquez-Murillo, Daisuke Kihara, Juan Esquivel-Rodríguez
Matching of EM Map Segments to Structurally-Relevant Bio-molecular Regions. CARLA 2019: 464-478 - [c7]Tuan Manh Lai, Quan Hung Tran, Trung Bui, Daisuke Kihara:
A Gated Self-attention Memory Network for Answer Selection. EMNLP/IJCNLP (1) 2019: 5952-5958 - [r1]Xusi Han, Woong-Hee Shin
Study of the Variability of the Native Protein Structure. Encyclopedia of Bioinformatics and Computational Biology (3) 2019: 606-619 - [i3]Tuan Manh Lai, Quan Hung Tran, Trung Bui, Daisuke Kihara:
A Gated Self-attention Memory Network for Answer Selection. CoRR abs/1909.09696 (2019) - [i2]Tuan Manh Lai, Quan Hung Tran, Trung Bui, Daisuke Kihara:
A Simple but Effective BERT Model for Dialog State Tracking on Resource-Limited Systems. CoRR abs/1910.12995 (2019) - [i1]Xiao Wang, Daisuke Kihara, Jiebo Luo, Guo-Jun Qi:
EnAET: Self-Trained Ensemble AutoEncoding Transformations for Semi-Supervised Learning. CoRR abs/1911.09265 (2019) - 2018
- [j34]Lenna X. Peterson
Modeling the assembly order of multimeric heteroprotein complexes. PLoS Comput. Biol. 14(1) (2018) - [j33]Satwica Yerneni
IAS: Interaction Specific GO Term Associations for Predicting Protein-Protein Interaction Networks. IEEE ACM Trans. Comput. Biol. Bioinform. 15(4): 1247-1258 (2018) - 2017
- [j32]Ishita K. Khan, Mansurul Bhuiyan, Daisuke Kihara
DextMP: deep dive into text for predicting moonlighting proteins. Bioinform. 33(14): i83-i91 (2017) - [j31]Qing Wei, Ishita K. Khan, Ziyun Ding, Satwica Yerneni
NaviGO: interactive tool for visualization and functional similarity and coherence analysis with gene ontology. BMC Bioinform. 18(1): 177:1-177:13 (2017) - [j30]Abram Magner
A Study of the Boltzmann Sequence-Structure Channel. Proc. IEEE 105(2): 286-305 (2017) - [j29]Lenna X. Peterson
Modeling disordered protein interactions from biophysical principles. PLoS Comput. Biol. 13(4) (2017) - [c6]Na Song, Daniela Craciun, Charles Christoffer, Xusi Han, Daisuke Kihara, Guillaume Levieux, Matthieu Montès
Protein Shape Retrieval. 3DOR@Eurographics 2017 - 2016
- [j28]Michal Jamróz, Andrzej Kolinski
Ensemble-based evaluation for protein structure models. Bioinform. 32(12): 314-321 (2016) - [j27]Ishita K. Khan, Daisuke Kihara
Genome-scale prediction of moonlighting proteins using diverse protein association information. Bioinform. 32(15): 2281-2288 (2016) - [j26]Laura J. Kingsley
Ranking protein-protein docking results using steered molecular dynamics and potential of mean force calculations. J. Comput. Chem. 37(20): 1861-1865 (2016) - [j25]Xiaolei Zhu
Combined Approach of Patch-Surfer and PL-PatchSurfer for Protein-Ligand Binding Prediction in CSAR 2013 and 2014. J. Chem. Inf. Model. 56(6): 1088-1099 (2016) - [j24]Woong-Hee Shin
PL-PatchSurfer2: Improved Local Surface Matching-Based Virtual Screening Method That Is Tolerant to Target and Ligand Structure Variation. J. Chem. Inf. Model. 56(9): 1676-1691 (2016) - [c5]Abram Magner, Daisuke Kihara, Wojciech Szpankowski:
The Boltzmann sequence-structure channel. ISIT 2016: 255-259 - 2015
- [j23]Ishita K. Khan, Qing Wei, Meghana Chitale, Daisuke Kihara:
PFP/ESG: automated protein function prediction servers enhanced with Gene Ontology visualization tool. Bioinform. 31(2): 271-272 (2015) - [j22]Xiaolei Zhu
Large-scale binding ligand prediction by improved patch-based method Patch-Surfer2.0. Bioinform. 31(5): 707-713 (2015) - [j21]Juan Esquivel-Rodríguez
Navigating 3D electron microscopy maps with EM-SURFER. BMC Bioinform. 16: 181:1-181:9 (2015) - [j20]Yuta Otsuka, Ai Muto, Rikiya Takeuchi
GenoBase: comprehensive resource database of Escherichia coli K-12. Nucleic Acids Res. 43(Database-Issue): 606-617 (2015) - [c4]Abram Magner, Daisuke Kihara, Wojciech Szpankowski:
Phase transitions in a sequence-structure channel. ITA 2015: 235-239 - 2014
- [j19]Jim Cavalcoli, Lonnie R. Welch, Bruce J. Aronow, Sorin Draghici
The International Society of Computational Biology presents: the Great Lakes Bioinformatics Conference, May 16-18, 2014, Cincinnati, Ohio. Bioinform. 30(1): 148-149 (2014) - [j18]Atilla Sit, Daisuke Kihara:
Comparison of Image Patches Using Local Moment Invariants. IEEE Trans. Image Process. 23(5): 2369-2379 (2014) - 2013
- [j17]Meghana Chitale, Ishita K. Khan, Daisuke Kihara:
In-depth performance evaluation of PFP and ESG sequence-based function prediction methods in CAFA 2011 experiment. BMC Bioinform. 14(S-3): S2 (2013) - [c3]Harutoyo Hirano
Evaluation of Arterial Stiffness during the Flow-Mediated Dilation Test. SMC 2013: 3756-3759 - 2012
- [j16]Mario Abdel Messih, Meghana Chitale, Vladimir B. Bajic
Protein domain recurrence and order can enhance prediction of protein functions. Bioinform. 28(18): 444-450 (2012) - [j15]Bin Li, Daisuke Kihara:
Protein docking prediction using predicted protein-protein interface. BMC Bioinform. 13: 7 (2012) - [j14]Chao Yuan, Hao Chen, Daisuke Kihara:
Effective inter-residue contact definitions for accurate protein fold recognition. BMC Bioinform. 13: 292 (2012) - [j13]Juan Esquivel-Rodríguez
Evaluation of multiple protein docking structures using correctly predicted pairwise subunits. BMC Bioinform. 13(S-2): S6 (2012) - [j12]Lee Sael
Constructing patch-based ligand-binding pocket database for predicting function of proteins. BMC Bioinform. 13(S-2): S7 (2012) - 2011
- [j11]Meghana Chitale, Shriphani Palakodety
Quantification of Protein Group Coherence and Pathway Assignment Using Functional Association. BMC Bioinform. 12: 373 (2011) - 2010
- [j10]Troy Hawkins, Meghana Chitale, Daisuke Kihara:
Functional enrichment analyses and construction of functional similarity networks with high confidence function prediction by PFP. BMC Bioinform. 11: 265 (2010) - [j9]Lee Sael
Improved protein surface comparison and application to low-resolution protein structure data. BMC Bioinform. 11(S-11): S2 (2010) - [j8]Lee Sael
Characterization and Classification of Local Protein Surfaces Using Self-Organizing Map. Int. J. Knowl. Discov. Bioinform. 1(1): 32-47 (2010)
2000 – 2009
- 2009
- [j7]Meghana Chitale, Troy Hawkins, Changsoon Park, Daisuke Kihara
ESG: extended similarity group method for automated protein function prediction. Bioinform. 25(14): 1739-1745 (2009) - [j6]David La, Juan Esquivel-Rodríguez
3D-SURFER: software for high-throughput protein surface comparison and analysis. Bioinform. 25(21): 2843-2844 (2009) - [j5]Vishwesh Venkatraman
Protein-protein docking using region-based 3D Zernike descriptors. BMC Bioinform. 10: 407 (2009) - [j4]Vishwesh Venkatraman
Application of 3D Zernike descriptors to shape-based ligand similarity searching. J. Cheminformatics 1: 19 (2009) - 2008
- [j3]Luo Si, Danni Yu, Daisuke Kihara, Yi Fang:
Combining gene sequence similarity and textual information for gene function annotation in the literature. Inf. Retr. 11(5): 389-404 (2008) - 2007
- [j2]Troy Hawkins, Daisuke Kihara
Function Prediction of uncharacterized proteins. J. Bioinform. Comput. Biol. 5(1): 1-30 (2007) - [c2]Mingwu Zhang, Daisuke Kihara, Sunil Prabhakar
Tracing Lineage in Multi-version Scientific Databases. BIBE 2007: 440-447 - [c1]Yu-Shen Liu, Min Liu, Daisuke Kihara, Karthik Ramani:
Salient critical points for meshes. Symposium on Solid and Physical Modeling 2007: 277-282 - 2006
- [j1]Jianjun Hu, Yifeng D. Yang, Daisuke Kihara:
EMD: an ensemble algorithm for discovering regulatory motifs in DNA sequences. BMC Bioinform. 7: 342 (2006)
Coauthor Index
manage site settings
To protect your privacy, all features that rely on external API calls from your browser are turned off by default. You need to opt-in for them to become active. All settings here will be stored as cookies with your web browser. For more information see our F.A.Q.
Unpaywalled article links
Add open access links from to the list of external document links (if available).
Privacy notice: By enabling the option above, your browser will contact the API of unpaywall.org to load hyperlinks to open access articles. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Unpaywall privacy policy.
Archived links via Wayback Machine
For web page which are no longer available, try to retrieve content from the of the Internet Archive (if available).
Privacy notice: By enabling the option above, your browser will contact the API of archive.org to check for archived content of web pages that are no longer available. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Internet Archive privacy policy.
Reference lists
Add a list of references from ,
, and
to record detail pages.
load references from crossref.org and opencitations.net
Privacy notice: By enabling the option above, your browser will contact the APIs of crossref.org, opencitations.net, and semanticscholar.org to load article reference information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Crossref privacy policy and the OpenCitations privacy policy, as well as the AI2 Privacy Policy covering Semantic Scholar.
Citation data
Add a list of citing articles from and
to record detail pages.
load citations from opencitations.net
Privacy notice: By enabling the option above, your browser will contact the API of opencitations.net and semanticscholar.org to load citation information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the OpenCitations privacy policy as well as the AI2 Privacy Policy covering Semantic Scholar.
OpenAlex data
Load additional information about publications from .
Privacy notice: By enabling the option above, your browser will contact the API of openalex.org to load additional information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the information given by OpenAlex.
last updated on 2024-12-03 20:31 CET by the dblp team
all metadata released as open data under CC0 1.0 license
see also: Terms of Use | Privacy Policy | Imprint
dblp was originally created in 1993 at:
since 2018, dblp has been operated and maintained by:
the dblp computer science bibliography is funded and supported by: