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ORCIDBibTeX records: Ruochi Zhang
@article{DBLP:journals/corr/abs-2401-11360,
author = {Ruochi Zhang and
Haoran Wu and
Chang Liu and
Huaping Li and
Yuqian Wu and
Kewei Li and
Yifan Wang and
Yifan Deng and
Jiahui Chen and
Fengfeng Zhou and
Xin Gao},
title = {PepHarmony: {A} Multi-View Contrastive Learning Framework for Integrated
Sequence and Structure-Based Peptide Encoding},
journal = {CoRR},
volume = {abs/2401.11360},
year = {2024},
url = {https://doi.org/10.48550/arXiv.2401.11360},
doi = {10.48550/ARXIV.2401.11360},
eprinttype = {arXiv},
eprint = {2401.11360},
timestamp = {Tue, 09 Apr 2024 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2401-11360.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bib/DuanWZLZLZHZZ23,
author = {Meiyu Duan and
Yueying Wang and
Dong Zhao and
Hongmei Liu and
Gongyou Zhang and
Kewei Li and
Haotian Zhang and
Lan Huang and
Ruochi Zhang and
Fengfeng Zhou},
title = {Orchestrating information across tissues via a novel multitask {GAT}
framework to improve quantitative gene regulation relation modeling
for survival analysis},
journal = {Briefings Bioinform.},
volume = {24},
number = {4},
year = {2023},
url = {https://doi.org/10.1093/bib/bbad238},
doi = {10.1093/BIB/BBAD238},
timestamp = {Sun, 24 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bib/DuanWZLZLZHZZ23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cbm/WangZZGZZMYHLFHZ23,
author = {Yan Wang and
Ruochi Zhang and
Shengde Zhang and
Liming Guo and
Qiong Zhou and
Bowen Zhao and
Xiaotong Mo and
Qian Yang and
Yajuan Huang and
Kewei Li and
Yusi Fan and
Lan Huang and
Fengfeng Zhou},
title = {{OCMR:} {A} comprehensive framework for optical chemical molecular
recognition},
journal = {Comput. Biol. Medicine},
volume = {163},
pages = {107187},
year = {2023},
url = {https://doi.org/10.1016/j.compbiomed.2023.107187},
doi = {10.1016/J.COMPBIOMED.2023.107187},
timestamp = {Sun, 24 Sep 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/cbm/WangZZGZZMYHLFHZ23.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2311-04419,
author = {Ruochi Zhang and
Haoran Wu and
Yuting Xiu and
Kewei Li and
Ningning Chen and
Yu Wang and
Yan Wang and
Xin Gao and
Fengfeng Zhou},
title = {PepLand: a large-scale pre-trained peptide representation model for
a comprehensive landscape of both canonical and non-canonical amino
acids},
journal = {CoRR},
volume = {abs/2311.04419},
year = {2023},
url = {https://doi.org/10.48550/arXiv.2311.04419},
doi = {10.48550/ARXIV.2311.04419},
eprinttype = {arXiv},
eprint = {2311.04419},
timestamp = {Thu, 16 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2311-04419.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/ZhangZM22,
author = {Ruochi Zhang and
Tianming Zhou and
Jian Ma},
editor = {Itsik Pe'er},
title = {Ultrafast and Interpretable Single-Cell 3D Genome Analysis with Fast-Higashi},
booktitle = {Research in Computational Molecular Biology - 26th Annual International
Conference, {RECOMB} 2022, San Diego, CA, USA, May 22-25, 2022, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {13278},
pages = {300--301},
publisher = {Springer},
year = {2022},
url = {https://doi.org/10.1007/978-3-031-04749-7\_19},
doi = {10.1007/978-3-031-04749-7\_19},
timestamp = {Wed, 18 May 2022 18:07:47 +0200},
biburl = {https://dblp.org/rec/conf/recomb/ZhangZM22.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/DengCZLWZ21,
author = {Daiguo Deng and
Xiaowei Chen and
Ruochi Zhang and
Zengrong Lei and
Xiaojian Wang and
Fengfeng Zhou},
title = {XGraphBoost: Extracting Graph Neural Network-Based Features for a
Better Prediction of Molecular Properties},
journal = {J. Chem. Inf. Model.},
volume = {61},
number = {6},
pages = {2697--2705},
year = {2021},
url = {https://doi.org/10.1021/acs.jcim.0c01489},
doi = {10.1021/ACS.JCIM.0C01489},
timestamp = {Thu, 16 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jcisd/DengCZLWZ21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jcisd/DengCZLWZ21a,
author = {Daiguo Deng and
Xiaowei Chen and
Ruochi Zhang and
Zengrong Lei and
Xiaojian Wang and
Fengfeng Zhou},
title = {Correction to "XGraphBoost: Extracting Graph Neural Network-Based
Features for a Better Prediction of Molecular Properties"},
journal = {J. Chem. Inf. Model.},
volume = {61},
number = {9},
pages = {4820--4822},
year = {2021},
url = {https://doi.org/10.1021/acs.jcim.1c00966},
doi = {10.1021/ACS.JCIM.1C00966},
timestamp = {Wed, 03 Nov 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/jcisd/DengCZLWZ21a.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tcns/ZhangV20,
author = {Ruochi Zhang and
Parv Venkitasubramaniam},
title = {False Data Injection and Detection in {LQG} Systems: {A} Game Theoretic
Approach},
journal = {{IEEE} Trans. Control. Netw. Syst.},
volume = {7},
number = {1},
pages = {338--348},
year = {2020},
url = {https://doi.org/10.1109/TCNS.2019.2910459},
doi = {10.1109/TCNS.2019.2910459},
timestamp = {Thu, 09 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tcns/ZhangV20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tsp/ZhangV20,
author = {Ruochi Zhang and
Parv Venkitasubramaniam},
title = {Optimal Local Differentially Private Quantization},
journal = {{IEEE} Trans. Signal Process.},
volume = {68},
pages = {6509--6520},
year = {2020},
url = {https://doi.org/10.1109/TSP.2020.3033483},
doi = {10.1109/TSP.2020.3033483},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tsp/ZhangV20.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iclr/ZhangZ020,
author = {Ruochi Zhang and
Yuesong Zou and
Jian Ma},
title = {Hyper-SAGNN: a self-attention based graph neural network for hypergraphs},
booktitle = {8th International Conference on Learning Representations, {ICLR} 2020,
Addis Ababa, Ethiopia, April 26-30, 2020},
publisher = {OpenReview.net},
year = {2020},
url = {https://openreview.net/forum?id=ryeHuJBtPH},
timestamp = {Thu, 07 May 2020 17:11:47 +0200},
biburl = {https://dblp.org/rec/conf/iclr/ZhangZ020.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/recomb/Zhang020,
author = {Ruochi Zhang and
Jian Ma},
editor = {Russell Schwartz},
title = {Probing Multi-way Chromatin Interaction with Hypergraph Representation
Learning},
booktitle = {Research in Computational Molecular Biology - 24th Annual International
Conference, {RECOMB} 2020, Padua, Italy, May 10-13, 2020, Proceedings},
series = {Lecture Notes in Computer Science},
volume = {12074},
pages = {276--277},
publisher = {Springer},
year = {2020},
url = {https://doi.org/10.1007/978-3-030-45257-5\_37},
doi = {10.1007/978-3-030-45257-5\_37},
timestamp = {Tue, 21 Apr 2020 12:14:30 +0200},
biburl = {https://dblp.org/rec/conf/recomb/Zhang020.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1911-02613,
author = {Ruochi Zhang and
Yuesong Zou and
Jian Ma},
title = {Hyper-SAGNN: a self-attention based graph neural network for hypergraphs},
journal = {CoRR},
volume = {abs/1911.02613},
year = {2019},
url = {http://arxiv.org/abs/1911.02613},
eprinttype = {arXiv},
eprint = {1911.02613},
timestamp = {Sat, 23 Jan 2021 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-1911-02613.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/ZhangWYZM18,
author = {Ruochi Zhang and
Yuchuan Wang and
Yang Yang and
Yang Zhang and
Jian Ma},
title = {Predicting CTCF-mediated chromatin loops using {CTCF-MP}},
journal = {Bioinform.},
volume = {34},
number = {13},
pages = {i133--i141},
year = {2018},
url = {https://doi.org/10.1093/bioinformatics/bty248},
doi = {10.1093/BIOINFORMATICS/BTY248},
timestamp = {Sat, 25 Sep 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/ZhangWYZM18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bmcbi/ZhangZZWZFZ18,
author = {Ruochi Zhang and
Ruixue Zhao and
Xinyang Zhao and
Di Wu and
Weiwei Zheng and
Xin Feng and
Fengfeng Zhou},
title = {pyHIVE, a health-related image visualization and engineering system
using Python},
journal = {{BMC} Bioinform.},
volume = {19},
number = {1},
pages = {452:1--452:6},
year = {2018},
url = {https://doi.org/10.1186/s12859-018-2477-7},
doi = {10.1186/S12859-018-2477-7},
timestamp = {Sun, 15 Mar 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/bmcbi/ZhangZZWZFZ18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cbm/ZhaoZTFLLZWLZYW18,
author = {Ruixue Zhao and
Ruochi Zhang and
Tongyu Tang and
Xin Feng and
Jialiang Li and
Yue Liu and
Renxiang Zhu and
Guangze Wang and
Kangning Li and
Wenyang Zhou and
Yunfei Yang and
Yuzhao Wang and
Yuanjie Ba and
Jiaojiao Zhang and
Yang Liu and
Fengfeng Zhou},
title = {TriZ-a rotation-tolerant image feature and its application in endoscope-based
disease diagnosis},
journal = {Comput. Biol. Medicine},
volume = {99},
pages = {182--190},
year = {2018},
url = {https://doi.org/10.1016/j.compbiomed.2018.06.006},
doi = {10.1016/J.COMPBIOMED.2018.06.006},
timestamp = {Mon, 22 May 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/cbm/ZhaoZTFLLZWLZYW18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/allerton/ZhangV18,
author = {Ruochi Zhang and
Parv Venkitasubramaniam},
title = {Optimal Multi-Source Inference Privacy - {A} Generalized Lloyd-Max
Algorithm},
booktitle = {56th Annual Allerton Conference on Communication, Control, and Computing,
Allerton 2018, Monticello, IL, USA, October 2-5, 2018},
pages = {219--226},
publisher = {{IEEE}},
year = {2018},
url = {https://doi.org/10.1109/ALLERTON.2018.8635890},
doi = {10.1109/ALLERTON.2018.8635890},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/allerton/ZhangV18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/apsipa/ZhangV18,
author = {Ruochi Zhang and
Parv Venkitasubramaniam},
title = {Optimal Distribution Mapping for Inference Privacy},
booktitle = {Asia-Pacific Signal and Information Processing Association Annual
Summit and Conference, {APSIPA} {ASC} 2018, Honolulu, HI, USA, November
12-15, 2018},
pages = {1179--1187},
publisher = {{IEEE}},
year = {2018},
url = {https://doi.org/10.23919/APSIPA.2018.8659632},
doi = {10.23919/APSIPA.2018.8659632},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/apsipa/ZhangV18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/icassp/ZhangV18,
author = {Ruochi Zhang and
Parv Venkitasubramaniam},
title = {Mutual-Information-Private Online Gradient Descent Algorithm},
booktitle = {2018 {IEEE} International Conference on Acoustics, Speech and Signal
Processing, {ICASSP} 2018, Calgary, AB, Canada, April 15-20, 2018},
pages = {2077--2081},
publisher = {{IEEE}},
year = {2018},
url = {https://doi.org/10.1109/ICASSP.2018.8461756},
doi = {10.1109/ICASSP.2018.8461756},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/icassp/ZhangV18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/bioinformatics/YangZSM17,
author = {Yang Yang and
Ruochi Zhang and
Shashank Singh and
Jian Ma},
title = {Exploiting sequence-based features for predicting enhancer-promoter
interactions},
journal = {Bioinform.},
volume = {33},
number = {14},
pages = {i252--i260},
year = {2017},
url = {https://doi.org/10.1093/bioinformatics/btx257},
doi = {10.1093/BIOINFORMATICS/BTX257},
timestamp = {Tue, 17 Aug 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/bioinformatics/YangZSM17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/jib/GeMZWWZ17,
author = {Ruiquan Ge and
Guoqin Mai and
Ruochi Zhang and
Xundong Wu and
Qing Wu and
Fengfeng Zhou},
title = {MUSTv2: An Improved De Novo Detection Program for Recently Active
Miniature Inverted Repeat Transposable Elements (MITEs)},
journal = {J. Integr. Bioinform.},
volume = {14},
number = {3},
year = {2017},
url = {https://doi.org/10.1515/jib-2017-0029},
doi = {10.1515/JIB-2017-0029},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/jib/GeMZWWZ17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/tifs/ZhangV17,
author = {Ruochi Zhang and
Parv Venkitasubramaniam},
title = {Stealthy Control Signal Attacks in Linear Quadratic Gaussian Control
Systems: Detectability Reward Tradeoff},
journal = {{IEEE} Trans. Inf. Forensics Secur.},
volume = {12},
number = {7},
pages = {1555--1570},
year = {2017},
url = {https://doi.org/10.1109/TIFS.2017.2668220},
doi = {10.1109/TIFS.2017.2668220},
timestamp = {Thu, 06 Aug 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/tifs/ZhangV17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/cns/ZhangV17,
author = {Ruochi Zhang and
Parv Venkitasubramaniam},
title = {A game theoretic approach to analyze false data injection and detection
in {LQG} system},
booktitle = {2017 {IEEE} Conference on Communications and Network Security, {CNS}
2017, Las Vegas, NV, USA, October 9-11, 2017},
pages = {427--431},
publisher = {{IEEE}},
year = {2017},
url = {https://doi.org/10.1109/CNS.2017.8228704},
doi = {10.1109/CNS.2017.8228704},
timestamp = {Wed, 16 Oct 2019 14:14:55 +0200},
biburl = {https://dblp.org/rec/conf/cns/ZhangV17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/amcc/ZhangV16,
author = {Ruochi Zhang and
Parv Venkitasubramaniam},
title = {Stealthy control signal attacks in vector {LQG} systems},
booktitle = {2016 American Control Conference, {ACC} 2016, Boston, MA, USA, July
6-8, 2016},
pages = {1179--1184},
publisher = {{IEEE}},
year = {2016},
url = {https://doi.org/10.1109/ACC.2016.7525077},
doi = {10.1109/ACC.2016.7525077},
timestamp = {Wed, 16 Oct 2019 14:14:51 +0200},
biburl = {https://dblp.org/rec/conf/amcc/ZhangV16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/globalsip/ZhangV15,
author = {Ruochi Zhang and
Parv Venkitasubramaniam},
title = {Stealthy control signal attacks in scalar {LQG} systems},
booktitle = {2015 {IEEE} Global Conference on Signal and Information Processing,
GlobalSIP 2015, Orlando, FL, USA, December 14-16, 2015},
pages = {240--244},
publisher = {{IEEE}},
year = {2015},
url = {https://doi.org/10.1109/GlobalSIP.2015.7418193},
doi = {10.1109/GLOBALSIP.2015.7418193},
timestamp = {Thu, 14 Oct 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/globalsip/ZhangV15.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/ipm/SongGZXWYH11,
author = {Ruihua Song and
Qingwei Guo and
Ruochi Zhang and
Guomao Xin and
Ji{-}Rong Wen and
Yong Yu and
Hsiao{-}Wuen Hon},
title = {Select-the-Best-Ones: {A} new way to judge relative relevance},
journal = {Inf. Process. Manag.},
volume = {47},
number = {1},
pages = {37--52},
year = {2011},
url = {https://doi.org/10.1016/j.ipm.2010.02.005},
doi = {10.1016/J.IPM.2010.02.005},
timestamp = {Fri, 21 Feb 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/ipm/SongGZXWYH11.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/mdm/ZhengWZXM08,
author = {Yu Zheng and
Longhao Wang and
Ruochi Zhang and
Xing Xie and
Wei{-}Ying Ma},
editor = {Xiaofeng Meng and
Hui Lei and
St{\'{e}}phane Grumbach and
Hong Va Leong},
title = {GeoLife: Managing and Understanding Your Past Life over Maps},
booktitle = {9th International Conference on Mobile Data Management {(MDM} 2008),
Beijing, China, April 27-30, 2008},
pages = {211--212},
publisher = {{IEEE}},
year = {2008},
url = {https://doi.org/10.1109/MDM.2008.20},
doi = {10.1109/MDM.2008.20},
timestamp = {Thu, 23 Mar 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/conf/mdm/ZhengWZXM08.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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