Jie Hou

38 papers A* 1Journal 27Unranked 10
YearRankTypeTitle / Venue / Authors
2025 — conf
Advancing Protein-Ligand Binding Site Prediction with 3D Instance Segmentation Techniques.
CAI
Esha Rajesh Gavali, Jie Hou, Renzhi Cao, Dong Si
2025 J jnl
AnglesRefine: Refinement of 3D Protein Structures Using Transformer Based on Torsion Angles.
IEEE Trans. Comput. Biol. Bioinform.
Lei Zhang, JunYong Zhu, Sheng Wang, Jie Hou, Dong Si, Renzhi Cao
2025 J jnl
GOBoost: leveraging long-tail gene ontology terms for accurate protein function prediction.
Bioinform.
Lei Zhang, Yang Wang, Xiao Chen, Jie Hou, Dong Si, Rui Ding, Bo Jiang, Hailey Ledenko, Renzhi Cao
2025 — conf
Geometric Deep Learning for Multiple Conformation Generation from Electron Density Images.
CAI
Saurav Jayakumar, Jie Hou, Renzhi Cao, Dong Si
2025 J jnl
Guest Editorial for Selected Papers From BIOKDD 2023.
IEEE Trans. Comput. Biol. Bioinform.
Da Yan, Ariful Azad, Jie Hou, Jake Y. Chen
2025 — conf
Silver Linings in the Shadows: Harnessing Membership Fingerprinting for Machine Unlearning.
CNS
Nexhi Sula, Abhinav Kumar, Han Wang, Jie Hou, Reza Tourani
2025 — conf
Teaching Coding in the Age of AI: A Hands-on Tutorial on Process Feedback.
SIGCSE (2)
Badri Adhikari, Jie Hou
2024 J jnl
Enhancing cryo-EM structure prediction with DeepTracer and AlphaFold2 integration.
Briefings Bioinform.
Jason Chen, Ayisha Zia, Albert Luo, Hanze Meng, Fengbin Wang, Jie Hou, Renzhi Cao, Dong Si
2024 J jnl
Silver Linings in the Shadows: Harnessing Membership Inference for Machine Unlearning.
CoRR
Nexhi Sula, Abhinav Kumar, Jie Hou, Han Wang, Reza Tourani
2024 J jnl
Unveiling the Unseen: Exploring Whitebox Membership Inference through the Lens of Explainability.
CoRR
Chenxi Li, Abhinav Kumar, Zhen Guo, Jie Hou, Reza Tourani
2023 A* conf
22nd International Workshop on Data Mining in Bioinformatics (BIOKDD 2023).
KDD
Da Yan, Ariful Azad, Jie Hou, Jake Y. Chen, Mohammed J. Zaki
2023 — conf
A Stealthy Inference Attack on Split Learning with a Split-Fuse Defensive Measure.
CNS
Sean Dougherty, Abhinav Kumar, Jie Hou, Reza Tourani, Atena M. Tabakhi
2023 J jnl
ComplexQA: a deep graph learning approach for protein complex structure assessment.
Briefings Bioinform.
Lei Zhang, Sheng Wang, Jie Hou, Dong Si, JunYong Zhu, Renzhi Cao
2023 J jnl
Fast and automated protein-DNA/RNA macromolecular complex modeling from cryo-EM maps.
Briefings Bioinform.
Andrew Nakamura, Hanze Meng, Minglei Zhao, Fengbin Wang, Jie Hou, Renzhi Cao, Dong Si
2022 — conf
Deep graph learning to estimate protein model quality using structural constraints from multiple sequence alignments.
BCB
Mahdi Rahbar, Rahul Kumar Chauhan, Pankil Nimeshbhai Shah, Renzhi Cao, Dong Si, Jie Hou
2022 J jnl
ZoomQA: residue-level protein model accuracy estimation with machine learning on sequential and 3D structural features.
Briefings Bioinform.
Kyle Hippe, Cade Lilley, Joshua William Berkenpas, Ciri Chandana Pocha, Kiyomi Kishaba, Hui Ding, Jie Hou, Dong Si, Renzhi Cao
2021 J jnl
Artificial Intelligence Advances for De Novo Molecular Structure Modeling in Cryo-EM.
CoRR
Dong Si, Andrew Nakamura, Runbang Tang, Haowen Guan, Jie Hou, Ammaar Firozi, Renzhi Cao, Kyle Hippe, Minglei Zhao
2021 J jnl
Correction to: DeepDist: real‑value inter‑residue distance prediction with deep residual convolutional network.
BMC Bioinform.
Tianqi Wu, Zhiye Guo, Jie Hou, Jianlin Cheng
2021 J jnl
DISTEVAL: a web server for evaluating predicted protein distances.
BMC Bioinform.
Badri Adhikari, Bikash Shrestha, Matthew Bernardini, Jie Hou, Jamie Lea
2021 J jnl
DeepDist: real-value inter-residue distance prediction with deep residual convolutional network.
BMC Bioinform.
Tianqi Wu, Zhiye Guo, Jie Hou, Jianlin Cheng
2021 J jnl
DeepGRN: prediction of transcription factor binding site across cell-types using attention-based deep neural networks.
BMC Bioinform.
Chen Chen, Jie Hou, Xiaowen Shi, Hua Yang, James A. Birchler, Jianlin Cheng
2021 J jnl
GNET2: an R package for constructing gene regulatory networks from transcriptomic data.
Bioinform.
Chen Chen, Jie Hou, Xiaowen Shi, Hua Yang, James A. Birchler, Jianlin Cheng
2021 J jnl
Improving deep learning-based protein distance prediction in CASP14.
Bioinform.
Zhiye Guo, Tianqi Wu, Jian Liu, Jie Hou, Jianlin Cheng
2020 J jnl
Analysis of several key factors influencing deep learning-based inter-residue contact prediction.
Bioinform.
Tianqi Wu, Jie Hou, Badri Adhikari, Jianlin Cheng
2020 — conf
Deep Ranking in Template-free Protein Structure Prediction.
BCB
Xiao Chen, Nasrin Akhter, Zhiye Guo, Tianqi Wu, Jie Hou, Amarda Shehu, Jianlin Cheng
2020 — conf
Performance Evaluation of Viral Infection Diagnosis using T-Cell Receptor Sequence and Artificial Intelligence.
BCB
Tim Kosfeld, Jonathan McMillan, Richard J. DiPaolo, Jie Hou, Tae-Hyuk Ahn
2019 J jnl
PairedFB: a full hierarchical Bayesian model for paired RNA-seq data with heterogeneous treatment effects.
Bioinform.
Yuanyuan Bian, Chong He, Jie Hou, Jianlin Cheng, Jing Qiu
2018 J jnl
DNCON2: improved protein contact prediction using two-level deep convolutional neural networks.
Bioinform.
Badri Adhikari, Jie Hou, Jianlin Cheng
2018 — conf
DeepSF: Deep Convolutional Neural Network for Mapping Protein Sequences to Folds.
BCB
Jie Hou, Badri Adhikari, Jianlin Cheng
2018 J jnl
DeepSF: deep convolutional neural network for mapping protein sequences to folds.
Bioinform.
Jie Hou, Badri Adhikari, Jianlin Cheng
2017 J jnl
Deep learning methods for protein torsion angle prediction.
BMC Bioinform.
Haiou Li, Jie Hou, Badri Adhikari, Qiang Lyu, Jianlin Cheng
2017 J jnl
DeepSF: deep convolutional neural network for mapping protein sequences to folds.
CoRR
Jie Hou, Badri Adhikari, Jianlin Cheng
2017 J jnl
QAcon: single model quality assessment using protein structural and contact information with machine learning techniques.
Bioinform.
Renzhi Cao, Badri Adhikari, Debswapna Bhattacharya, Miao Sun, Jie Hou, Jianlin Cheng
2016 J jnl
ConEVA: a toolbox for comprehensive assessment of protein contacts.
BMC Bioinform.
Badri Adhikari, Jackson Nowotny, Debswapna Bhattacharya, Jie Hou, Jianlin Cheng
2016 J jnl
DeepQA: Improving the estimation of single protein model quality with deep belief networks.
CoRR
Renzhi Cao, Debswapna Bhattacharya, Jie Hou, Jianlin Cheng
2016 J jnl
DeepQA: improving the estimation of single protein model quality with deep belief networks.
BMC Bioinform.
Renzhi Cao, Debswapna Bhattacharya, Jie Hou, Jianlin Cheng
2015 J jnl
Exploring soybean metabolic pathways based on probabilistic graphical model and knowledge-based methods.
EURASIP J. Bioinform. Syst. Biol.
Jie Hou, Gary Stacey, Jianlin Cheng
2015 — conf
From gigabyte to kilobyte: a bioinformatics protocol for mining large RNA-Seq transcriptomics data.
BCB
Jilong Li, Jie Hou, Lin Sun, Jordan Maximillian Wilkins, Yuan Lu, Chad E. Niederhuth, Benjamin Ryan Merideth, Thomas P. Mawhinney, Valeri V. Mossine, Michael Greenlief, John C. Walker, William R. Folk, Mark Hannink, Dennis B. Lubahn, James A. Birchler, Jianlin Cheng