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26 changes: 13 additions & 13 deletions _config.yml
Original file line number Diff line number Diff line change
Expand Up @@ -6,9 +6,9 @@
# `jekyll serve`. If you change this file, please restart the server process.

# Site Settings
title : "Qizhi Pei"
description : "Qizhi Pei's Homepage"
repository : "QizhiPei/QizhiPei.github.io"
title : "Kaiyuan Gao"
description : "Kaiyuan Gao's Homepage"
repository : "KyGao/KyGao.github.io"
google_scholar_stats_use_cdn : true

# google analytics
Expand All @@ -21,31 +21,31 @@ baidu_site_verification : # get baidu_site_verification from https://ziyuan.ba

# Site Author
author:
name : "Qizhi Pei"
avatar : "images/profile_pqz.png"
bio : "Renmin University of China"
name : "Kaiyuan Gao"
avatar : "images/profile_gky1.jpg"
bio : "HUST & MSRA joint Ph.D. candidate"
location : "Beijing, China"
employer :
pubmed :
googlescholar : "https://scholar.google.com/citations?user=sf3xGU8AAAAJ"
email : "pqz1811@gmail.com"
researchgate : "https://www.researchgate.net/profile/Qizhi-Pei"
googlescholar : "https://scholar.google.com/citations?user=Or77MPQAAAAJ"
email : "im_kai@hust.edu.cn"
researchgate :
uri :
bitbucket :
codepen :
dribbble :
flickr :
facebook :
foursquare :
github : "QizhiPei"
github : "KyGao"
google_plus :
keybase :
instagram :
impactstory : # e.g., "https://profiles.impactstory.org/u/xxxx-xxxx-xxxx-xxxx"
lastfm :
linkedin : "启智-裴-680192218"
dblp : "https://dblp.org/pid/322/9716.html"
orcid : "https://orcid.org/0000-0002-7242-422X"
linkedin : "kaiyuan-gao-279087210"
dblp : # "https://dblp.org/pid/180/6731.html"
orcid : # "https://orcid.org/0009-0002-8862-8320"
pinterest :
soundcloud :
stackoverflow : # http://stackoverflow.com/users/123456/username
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24 changes: 12 additions & 12 deletions _data/navigation.yml
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@@ -1,22 +1,22 @@
# main links links
main:
- title: "About Me"
url: "/#about-me"
# - title: "About Me"
# url: "/#about-me"

- title: "News"
url: "/#-news"
# - title: "News"
# url: "/#-news"

- title: "Publications"
url: "/#-publications"
# - title: "Publications"
# url: "/#-publications"

- title: "Honors and Awards"
url: "/#-honors-and-awards"
# - title: "Honors and Awards"
# url: "/#-honors-and-awards"

- title: "Educations"
url: "/#-educations"
# - title: "Educations"
# url: "/#-educations"

# - title: "Invited Talks"
# url: "/#-invited-talks"

- title: "Internships"
url: "/#-internships"
# - title: "Internships"
# url: "/#-internships"
86 changes: 40 additions & 46 deletions _pages/about.md
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Expand Up @@ -17,7 +17,7 @@ redirect_from:

<span class='anchor' id='about-me'></span>

Qizhi Pei (裴启智 in Chinese) is currently a second year Ph.D. student at the [ALOHA group](https://aloha.show) of [Gaoling School of Artificial Intelligence (GSAI)](http://ai.ruc.edu.cn/) in [Renmin University of China (RUC)](https://www.ruc.edu.cn/), supervised by [Prof. Rui Yan](https://gsai.ruc.edu.cn/ruiyan). He got the B.S. degree from [School of Computer Science and Technology](https://cs.ustc.edu.cn/), [University of Science and Technology of China (USTC)](https://www.ustc.edu.cn/) in 2022. He currently is an intern of [Microsoft Research AI4Science](https://www.microsoft.com/en-us/research/lab/microsoft-research-ai4science/) and a member of [AI4Science Research Project](https://ai4sci-research.github.io), mentored by [Dr. Lijun Wu](https://apeterswu.github.io/). He also works closely with [Dr. Yingce Xia](https://www.microsoft.com/en-us/research/people/yinxia/) and [Kaiyuan Gao](https://github.com/KyGao).
Kaiyuan Gao (高开元 in Chinese) is currently a member of the joint Ph.D. program between [Huazhong University of Science and Technology (HUST)](https://www.hust.edu.cn/) and [Microsoft Research AI4Science](https://www.microsoft.com/en-us/research/lab/microsoft-research-ai-for-science/) (Asia), advised by [Prof. Kun He](http://faculty.hust.edu.cn/hekun/en/index.htm) and [Dr. Tie-Yan Liu](https://www.microsoft.com/en-us/research/people/tyliu/). Before that, he got the B.S. degree from [School of Artificial Intelligence and Automation](https://aia.hust.edu.cn/), HUST in 2021. He currently is a member of [AI4Science Research Project](https://ai4sci-research.github.io), mentored by [Dr. Lijun Wu](https://apeterswu.github.io/). He also works closely with [Qizhi Pei](https://qizhipei.github.io/).

His researches focus on AI4science, geometric deep learning, and multi-modal learning for biomolecule.

Expand All @@ -28,97 +28,91 @@ His researches focus on AI4science, geometric deep learning, and multi-modal lea

# 🔥 News
- *2024.05*: &nbsp;🎉🎉 BioT5+ is accepted by ACL 2024 (Findings). Thanks for all collaborators!
- *2024.04*: &nbsp; One paper about docking is submitted to Arxiv.
- *2024.02*: &nbsp; Two papers about cross-modal learning for biomolecule are submitted to Arxiv.
- *2023.10*: &nbsp;🎉🎉 BioT5 is accepted by EMNLP 2023. Thanks for all collaborators!
- *2023.10*: &nbsp;🎉🎉 SSM-DTA is accepted by Briefings in Bioinformatics 2023. Thanks for all collaborators!
- *2023.09*: &nbsp;🎉🎉 FABind is accepted by NeurIPS 2023. Thanks for all collaborators!
- *2023.08*: &nbsp;🎉🎉 ABGNN is accepted by KDD 2023. Thanks for all collaborators!
- *2023.02*: &nbsp;🎉🎉 NAGphormer is accepted by ICLR 2023. Thanks for all collaborators!

# 📝 Publications
("*": equal contribution; "†": correspondence)

<div class='paper-box'><div class='paper-box-image'><div><div class="badge">NeurIPS 2023</div><img src='images/fabind.png' alt="sym" width="100%"></div></div>
<div class='paper-box-text' markdown="1">

[FABind: Fast and Accurate Protein-Ligand Binding](https://arxiv.org/pdf/2310.06763.pdf) \\
**Qizhi Pei**(co-first author), Kaiyuan Gao, Lijun Wu, Jinhua Zhu, Yingce Xia, Shufang Xie, Tao Qin, Kun He, Tie-Yan Liu, Rui Yan

Qizhi Pei<sup>* </sup>, **Kaiyuan Gao**<sup>* </sup>, Lijun Wu<sup>† </sup>, Jinhua Zhu, Yingce Xia, Shufang Xie, Tao Qin, Kun He, Tie-Yan Liu, Rui Yan<sup>† </sup> \\
[**Project**](https://neurips.cc/virtual/2023/poster/71739) \| [![](https://img.shields.io/github/stars/QizhiPei/FABind?style=social&label=Code+Stars)](https://github.com/QizhiPei/FABind) \| [![Hugging Face](https://img.shields.io/badge/%F0%9F%A4%97%20Hugging%20Face-blue?label=Model)](https://huggingface.co/QizhiPei/FABind_model/tree/main)
</div>
</div>

<div class='paper-box'><div class='paper-box-image'><div><div class="badge">EMNLP 2023</div><img src='images/biot5.png' alt="sym" width="100%"></div></div>
<div class='paper-box-text' markdown="1">

[BioT5: Enriching Cross-modal Integration in Biology with Chemical Knowledge and Natural Language Associations](https://arxiv.org/abs/2310.07276) \\
**Qizhi Pei**, Wei Zhang, Jinhua Zhu, Kehan Wu, Kaiyuan Gao, Lijun Wu, Yingce Xia, Rui Yan

[**Project**](https://github.com/QizhiPei/BioT5) \| [![](https://img.shields.io/github/stars/QizhiPei/BioT5?style=social&label=Code+Stars)](https://github.com/QizhiPei/BioT5) \| [![Hugging Face](https://img.shields.io/badge/%F0%9F%A4%97%20Hugging%20Face-blue?label=Model)](https://huggingface.co/QizhiPei/biot5-base/tree/main) \| [![Hugging Face](https://img.shields.io/badge/%F0%9F%A4%97%20Hugging%20Face-blue?label=Data)](https://huggingface.co/datasets/QizhiPei/BioT5_finetune_dataset)
</div>
</div>

<div class='paper-box'><div class='paper-box-image'><div><div class="badge">ACL 2024 (Findings)</div><img src='images/biot5_plus.png' alt="sym" width="100%"></div></div>
<div class='paper-box'><div class='paper-box-image'><div><div class="badge">KDD 2023</div><img src='images/abgnn.png' alt="sym" width="100%"></div></div>
<div class='paper-box-text' markdown="1">

[BioT5+: Towards Generalized Biological Understanding with IUPAC Integration and Multi-task Tuning](https://arxiv.org/abs/2402.17810) \\
**Qizhi Pei**, Lijun Wu, Kaiyuan Gao, Xiaozhuan Liang, Yin Fang, Jinhua Zhu, Shufang Xie, Tao Qin, Rui Yan

[**Project**](https://github.com/QizhiPei/BioT5) \| [![](https://img.shields.io/github/stars/QizhiPei/BioT5?style=social&label=Code+Stars)](https://github.com/QizhiPei/BioT5)
[Pre-training Antibody Language Models for Antigen-Specific Computational Antibody Design](https://dl.acm.org/doi/abs/10.1145/3580305.3599468) \\
**Kaiyuan Gao**, Lijun Wu<sup>† </sup>, Jinhua Zhu, Tianbo Peng, Yingce Xia, Liang He, Shufang Xie, Tao Qin, Haiguang Liu, Kun He, Tie-Yan Liu \\
[**Code**](https://github.com/KyGao/ABGNN) \| [![](https://img.shields.io/github/stars/KyGao/ABGNN?style=social&label=Code+Stars)](https://github.com/KyGao/ABGNN)
</div>
</div>

<div class='paper-box'><div class='paper-box-image'><div><div class="badge">Briefings in Bioinformatics 2023</div><img src='images/ssm_dta.png' alt="sym" width="100%"></div></div>
<div class='paper-box-text' markdown="1">

[SSM-DTA: Breaking the Barriers of Data Scarcity in Drug-Target Affinity Prediction](https://doi.org/10.1093/bib/bbad386) \\
**Qizhi Pei**, Lijun Wu, Jinhua Zhu, Yingce Xia, Shufang Xie, Tao Qin, Haiguang Liu, Tie-Yan Liu, Rui Yan

[**Project**](https://github.com/QizhiPei/SSM-DTA) \| [![](https://img.shields.io/github/stars/QizhiPei/SSM-DTA?style=social&label=Code+Stars)](https://github.com/QizhiPei/SSM-DTA)
</div>
</div>

<div class='paper-box'><div class='paper-box-image'><div><div class="badge">Arxiv 2024</div><img src='images/cmbl_survey.png' alt="sym" width="100%"></div></div>
<div class='paper-box'><div class='paper-box-image'><div><div class="badge">ICLR 2023</div><img src='images/NAGphormer.jpg' alt="sym" width="100%"></div></div>
<div class='paper-box-text' markdown="1">

[Leveraging Biomolecule and Natural Language through Multi-Modal Learning: A Survey](https://arxiv.org/abs/2403.01528) \\
**Qizhi Pei**, Lijun Wu, Kaiyuan Gao, Jinhua Zhu, Yue Wang, Zun Wang, Tao Qin, Rui Yan

[**Project**](https://github.com/QizhiPei/Awesome-Biomolecule-Language-Cross-Modeling) \| [![](https://img.shields.io/github/stars/QizhiPei/Awesome-Biomolecule-Language-Cross-Modeling?style=social&label=Code+Stars)](https://github.com/QizhiPei/Awesome-Biomolecule-Language-Cross-Modeling)
[NAGphormer: A Tokenized Graph Transformer for Node Classification in Large Graphs](https://openreview.net/pdf?id=8KYeilT3Ow) \\
Jinsong Chen<sup>* </sup>, **Kaiyuan Gao**<sup>* </sup>, Gaichao Li, Kun He<sup>† </sup> \\
[**Code**](https://github.com/JHL-HUST/NAGphormer) \| [![](https://img.shields.io/github/stars/JHL-HUST/NAGphormer?style=social&label=Code+Stars)](https://github.com/JHL-HUST/NAGphormer)
</div>
</div>


<div class='paper-box'><div class='paper-box-image'><div><div class="badge">Arxiv 2024</div><img src='images/fabind_plus.png' alt="sym" width="100%"></div></div>
<div class='paper-box-text' markdown="1">

[FABind+: Enhancing Molecular Docking through Improved Pocket Prediction and Pose Generation](https://arxiv.org/abs/2403.20261) \\
Kaiyuan Gao, **Qizhi Pei**, Jinhua Zhu, Tao Qin, Kun He, Lijun Wu

[**Project**](https://github.com/QizhiPei/FABind) \| [![](https://img.shields.io/github/stars/QizhiPei/FABind?style=social&label=Code+Stars)](https://github.com/QizhiPei/FABind)
**Kaiyuan Gao**<sup>* </sup>, Qizhi Pei<sup>* </sup>, Gongbo Zhang, Jinhua Zhu, Tao Qin, Kun He, Lijun Wu<sup>† </sup> \\
[**Code**](https://github.com/QizhiPei/FABind) \| [![](https://img.shields.io/github/stars/QizhiPei/FABind?style=social&label=Code+Stars)](https://github.com/QizhiPei/FABind)
</div>
</div>


<div class='paper-box'><div class='paper-box-image'><div><div class="badge">Arxiv 2023</div><img src='images/gpt_alter_survey.png' alt="sym" width="100%"></div></div>
<div class='paper-box-text' markdown="1">

[Examining User-Friendly and Open-Sourced Large GPT Models: A Survey on Language, Multimodal, and Scientific GPT Models](https://arxiv.org/abs/2308.14149) \\
Kaiyuan Gao, Sunan He, Zhenyu He, Jiacheng Lin, **Qizhi Pei**, Jie Shao, Wei Zhang

[**Project**](https://github.com/GPT-Alternatives/gpt_alternatives) \| [![](https://img.shields.io/github/stars/GPT-Alternatives/gpt_alternatives?style=social&label=Code+Stars)](https://github.com/GPT-Alternatives/gpt_alternatives)
**Kaiyuan Gao**<sup>* </sup>, Sunan He<sup>* </sup>, Zhenyu He<sup>* </sup>, Jiacheng Lin<sup>* </sup>, Qizhi Pei<sup>* </sup>, Jie Shao<sup>* </sup>, Wei Zhang<sup>* </sup> \\
[**Code**](https://github.com/GPT-Alternatives/gpt_alternatives) \| [![](https://img.shields.io/github/stars/GPT-Alternatives/gpt_alternatives?style=social&label=Code+Stars)](https://github.com/GPT-Alternatives/gpt_alternatives)
</div>
</div>

# 🎖 Honors and Awards

- ``EMNLP 2023``[BioT5: Enriching Cross-modal Integration in Biology with Chemical Knowledge and Natural Language Associations](https://arxiv.org/abs/2310.07276) \\
Qizhi Pei, Wei Zhang, Jinhua Zhu, Kehan Wu, **Kaiyuan Gao**, Lijun Wu, Yingce Xia, Rui Yan \\
[**Code**](https://github.com/QizhiPei/BioT5) \| [![](https://img.shields.io/github/stars/QizhiPei/BioT5?style=social&label=Code+Stars)](https://github.com/QizhiPei/BioT5) \| [![Hugging Face](https://img.shields.io/badge/%F0%9F%A4%97%20Hugging%20Face-blue?label=Model)](https://huggingface.co/QizhiPei/biot5-base/tree/main) \| [![Hugging Face](https://img.shields.io/badge/%F0%9F%A4%97%20Hugging%20Face-blue?label=Data)](https://huggingface.co/datasets/QizhiPei/BioT5_finetune_dataset)


- ``ACL 2024 (Findings)``[BioT5+: Towards Generalized Biological Understanding with IUPAC Integration and Multi-task Tuning](https://arxiv.org/abs/2402.17810) \\
Qizhi Pei, Lijun Wu, **Kaiyuan Gao**, Xiaozhuan Liang, Yin Fang, Jinhua Zhu, Shufang Xie, Tao Qin, Rui Yan \\
[**Code**](https://github.com/QizhiPei/BioT5) \| [![](https://img.shields.io/github/stars/QizhiPei/BioT5?style=social&label=Code+Stars)](https://github.com/QizhiPei/BioT5)

- [Leveraging Biomolecule and Natural Language through Multi-Modal Learning: A Survey](https://arxiv.org/abs/2403.01528) \\
Qizhi Pei, Lijun Wu, **Kaiyuan Gao**, Jinhua Zhu, Yue Wang, Zun Wang, Tao Qin, Rui Yan \\
[**Project**](https://github.com/QizhiPei/Awesome-Biomolecule-Language-Cross-Modeling) \| [![](https://img.shields.io/github/stars/QizhiPei/Awesome-Biomolecule-Language-Cross-Modeling?style=social&label=Code+Stars)](https://github.com/QizhiPei/Awesome-Biomolecule-Language-Cross-Modeling)

<!-- # 🎖 Honors and Awards
- *2023* Doctoral Scholarship for Elite Innovative Talents of Renmin University of China (中国人民大学拔尖创新人才).
- *2022*, Excellent Graduation Thesis, USTC.
- *2022*, Outstanding Undergraduate Awards, USTC.
- *2018~2021*, Outstanding Student Scholarship, USTC.
- *2018~2021*, Outstanding Student Scholarship, USTC. -->

# 📖 Educations
<!-- # 📖 Educations
- *2022.09 - Now*, Ph.D. student in the Gaoling School of Artificial Intelligence, Renmin University of China.
- *2018.09 - 2022.06*, undergraduate student in the School of Computer Science and Technology, University of Science and Technology of China.
- *2018.09 - 2022.06*, undergraduate student in the School of Computer Science and Technology, University of Science and Technology of China. -->

<!-- # 💬 Invited Talks
- *2021.06*, Lorem ipsum dolor sit amet, consectetur adipiscing elit. Vivamus ornare aliquet ipsum, ac tempus justo dapibus sit amet.
- *2021.03*, Lorem ipsum dolor sit amet, consectetur adipiscing elit. Vivamus ornare aliquet ipsum, ac tempus justo dapibus sit amet. \| [\[video\]](https://github.com/) -->

# 💻 Internships
<!-- # 💻 Internships
- *2023.07 - Now*, [Microsoft Research AI4Science](https://www.microsoft.com/en-us/research/lab/microsoft-research-ai4science/), Beijing, China.
- *2021.07 - 2023.01*, [Microsoft Research Asia](https://www.microsoft.com/en-us/research/lab/microsoft-research-asia/), Beijing, China.
- *2021.07 - 2023.01*, [Microsoft Research Asia](https://www.microsoft.com/en-us/research/lab/microsoft-research-asia/), Beijing, China. -->
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object-fit: cover;
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.badge {
background-color: #3A3A3A;
color: white;
font-size: 1.2em;
}
}

.paper-box-text{
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