diff --git a/README.md b/README.md index 25e0db0..404768a 100644 --- a/README.md +++ b/README.md @@ -115,6 +115,8 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - [:hong\_kong: Hong Kong](#hong_kong-hong-kong) - [Chinese University of Hong Kong](#chinese-university-of-hong-kong) - [HKUST](#hkust) + - [:taiwan_: Taiwan](#taiwan-taiwan) + - [Acamedia Sinica](#taiwan-acamedia-sinica) - [:cn: China Mainland](#cn-china-mainland) - [Peking University 北京大学](#peking-university-北京大学) - [Tsinghua University 清华大学](#tsinghua-university-清华大学) @@ -163,7 +165,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www.regina.csail.mit.edu/) - Related paper: - CLIPZyme: [arXiv:2402.06748](http://arxiv.org/abs/2402.06748) - +
@@ -405,7 +407,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Ranganathan Lab](http://ranganathanlab.org/) - Related paper: - [Evolution-based design](https://www.science.org/doi/10.1126/science.aba3304) -
+
Andrew Ferguson @@ -414,7 +416,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Personal website: [Andrew Ferguson](https://pme.uchicago.edu/faculty/andrew-ferguson) - Related paper: - [SH3 design](https://www.cell.com/cell-systems/abstract/S2405-4712(24)00204-7#%20) -
+ ### UIUC @@ -530,7 +532,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www.nehakamat.com/) - Related Papers: - [Protein-lipid interaction engineerning](https://www.nature.com/articles/s41467-024-49678-z) - + ### UNC Chapel Hill @@ -611,14 +613,14 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://kyunghyuncho.me/) - Related paper: - [Protein Design w/ Guided Discrete Diffusion](https://openreview.net/forum?id=MfiK69Ga6p) - +
Andrew Gordon Wilson - Lab website: [Link](https://cims.nyu.edu/~andrewgw/) - [Protein Design w/ Guided Discrete Diffusion](https://openreview.net/forum?id=MfiK69Ga6p) -
+ ### Northeastern University @@ -862,7 +864,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://profiles.cardiff.ac.uk/staff/parmeggianif) - Related papers: - [Repeat protein design](https://www.nature.com/articles/nature16162) - + ### University of Leeds @@ -966,7 +968,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www.schoederlab.org/) - Related paper: - [Combine Rosetta and ESM](https://pubs.acs.org/doi/10.1021/acssynbio.3c00753) - + ### University of Bayreuth @@ -987,7 +989,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://bioc.polytechnique.fr/biocomputing/) - Related paper: - [Proteus](https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.23418) - + ### INRAE MIAT @@ -1013,7 +1015,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Artificial Intelligence for Protein Design - Noelia Ferruz lab](https://www.aiproteindesign.com/) - Related paper: - [ZymCTRL](https://www.biorxiv.org/content/10.1101/2024.05.03.592223v2) - + ### IBMB CSIC @@ -1023,7 +1025,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://ibmb.csic.es/en/department-of-structural-and-molecular-biology/protein-design-and-modeling/#lab-presentation) - Related paper: - [de novo immunoglobulin design](https://www.nature.com/articles/s41467-023-41717-5) - + ### IMDEA Nanoscience research institute @@ -1073,7 +1075,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Related Paper: - [Helical Bundle design](https://www.science.org/doi/abs/10.1126/science.1257481) - [ESM-Scan](https://www.biorxiv.org/content/10.1101/2023.12.12.571273v2) - + ## :belgium: Belgium @@ -1085,7 +1087,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://vorobievalab.sites.vib.be/en) - Related papers: - [Nanopore design](https://www.science.org/doi/10.1126/science.adn3796) - + ## :sweden: Sweden @@ -1097,7 +1099,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://patrickbryantlab.github.io/) - Related papers: - [EvoBind for binder design](https://www.biorxiv.org/content/10.1101/2022.07.23.501214v1) - + ## :denmark: Denmark @@ -1109,7 +1111,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www1.bio.ku.dk/english/research/bms/pbg/mw/) - Related papers: - [IDP design](https://www.science.org/doi/full/10.1126/sciadv.adm9926) - +
@@ -1118,7 +1120,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www1.bio.ku.dk/english/research/bms/sbinlab/kll/) - Related papers: - [Glycoside hydrolase carving-out](https://pubs.acs.org/doi/full/10.1021/acssynbio.3c00674) -
+ ### Aarhus University @@ -1142,7 +1144,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - [Antibody humanness optimize](https://www.nature.com/articles/s41551-023-01079-1) - [Peroxidases Design](https://pubs.acs.org/doi/10.1021/jacs.1c12433) - [Enzyme Repertoires design](https://doi.org/10.1016/j.molcel.2018.08.033) - + ### Tel Aviv University @@ -1206,7 +1208,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://sites.google.com/view/tsubo-lab/home) - Related papers: - [Mega-scale mutation scanning](https://www.nature.com/articles/s41586-023-06328-6) - + @@ -1222,7 +1224,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Related papers: - [EvoDesign](https://doi.org/10.1016/j.jmb.2019.02.028) - [EvoEF2](https://academic.oup.com/bioinformatics/article/36/4/1135/5582267) - + ## :kr: South Korea @@ -1284,7 +1286,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://liyu95.com/) - Related Paper: - [Dense Homolog Retriever](https://www.nature.com/articles/s41587-024-02353-6) - + ### HKUST @@ -1294,8 +1296,19 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www.danqing-zhu.com/) - Related Paper - [AAV library design](https://www.science.org/doi/full/10.1126/sciadv.adj3786) - + +## :taiwan: Taiwan + +### Acamedia Sinica + +
+Kuen-Phon Wu + +- Lab Website: [Link](https://kpwulab.com) +- Related Papers: + - [ACS Synthetic Biology 2023] Rsp5 E3 ligase Design: https://pubs.acs.org/doi/full/10.1021/acssynbio.3c00042 +
## :cn: China Mainland @@ -1307,7 +1320,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](http://mdl.ipc.pku.edu.cn/) - Related Papers: - [Angew 2024] GeoSeqBuilder: https://onlinelibrary.wiley.com/doi/10.1002/anie.202411461 - +
Yi Qin Gao 高毅勤 @@ -1327,7 +1340,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://zwt233.github.io/) - Related Papers: - [ACL 2024] ProtLLM: ProtLLM: An Interleaved Protein-Language LLM with Protein-as-Word Pre-Training -
+ ### Tsinghua University 清华大学
@@ -1336,7 +1349,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://structpred.life.tsinghua.edu.cn/) - Related Papers: - [NatComm 2024] SPIRED: https://www.nature.com/articles/s41467-024-51776-x -
+
Chunfu Xu 徐纯福 @@ -1344,7 +1357,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www.timbr.tsinghua.edu.cn/info/1752/3158.htm) - Related Papers: - [Nature 2020] Transmembrane pore design: https://www.nature.com/articles/s41586-020-2646-5 -
+
Jianzhu Ma 马剑竹 @@ -1352,7 +1365,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://majianzhu.com/) - Related Papers: - [NeurlPS 2022] DiffAb: https://www.biorxiv.org/content/10.1101/2022.07.10.499510.abstract -
+
Yang Liu 刘洋 @@ -1360,7 +1373,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://nlp.csai.tsinghua.edu.cn/~ly/) - Related Papers: - [ICLR 2023] Antibody design: https://arxiv.org/abs/2208.06073 -
+
Yanyan Lan 兰艳艳 @@ -1374,7 +1387,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://zhouh.github.io/) - Related Papers: - [ICML 2024] ESM-AA: https://arxiv.org/abs/2403.12995 -
+ ### CAS ICT 中国科学院计算技术研究所 @@ -1384,7 +1397,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://people.ucas.edu.cn/~dbu) - Related Papers: - [Nature Machine Intelligence 2024] CarbonDesign: https://www.nature.com/articles/s42256-024-00838-2 - +
Haicang Zhang 张海仓 @@ -1392,7 +1405,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://people.ucas.ac.cn/~0032113) - Related Papers: - [Nature Machine Intelligence 2024] CarbonDesign: https://www.nature.com/articles/s42256-024-00838-2 -
+ ### CAS IBP 中国科学院生物物理研究所 @@ -1402,14 +1415,14 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://ibp.cas.cn/kydw_157813/xrktzz/xsszmZ/201912/t20191202_5447225.html) - Related Papers: - [ProT-Diff for AMP generation](https://onlinelibrary.wiley.com/doi/10.1002/advs.202406305) - +
Dianbing Wang 王殿冰 - Related Papers: - [ProT-Diff for AMP generation](https://onlinelibrary.wiley.com/doi/10.1002/advs.202406305) -
+ ### Renmin University of China 中国人民大学
@@ -1418,7 +1431,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://gsai.ruc.edu.cn/wenbing_huang) - Related Papers: - [Antibody design](https://arxiv.org/abs/2302.00203) -
+ ### Shanghai Jiao Tong University 上海交通大学
@@ -1428,7 +1441,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Related Papers: - [CPDiffusion for Argonaute design](https://www.nature.com/articles/s41421-024-00728-2) - [CPDiffusion-SS for secondary structure based design](https://arxiv.org/abs/2407.07443) -
+
Haifeng Cheng 陈海峰 @@ -1437,7 +1450,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Related Papers: - [GPD](https://academic.oup.com/bib/article/25/3/bbae135/7638270) - [Sequence design benchmark](https://doi.org/10.1093/bioinformatics/btae037) -
+
Shuangjia Zheng 郑双佳 @@ -1463,7 +1476,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://life.sjtu.edu.cn/teacher/ruiqing) - Related Papers: - [NatComm 2024] QTY code: https://www.nature.com/articles/s41467-024-48513-9, [Chem Rev 2023] Review: https://pubs.acs.org/doi/full/10.1021/acs.chemrev.1c00757 -
+
Yuguang Wang 王宇光 @@ -1471,7 +1484,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://yuguangwang.github.io/) - Related Papers: - [NeurIPS 2023] GraDe-IF: https://arxiv.org/abs/2306.16819 -
+ ### Fudan University 复旦大学
@@ -1486,7 +1499,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://mrics.fudan.edu.cn/info/1021/1110.htm) - Related Papers: - [bioRxiv 2024] https://www.biorxiv.org/content/10.1101/2024.08.20.608889v1.full -
+ ### ShanghaiTech University 上海科技大学
@@ -1495,7 +1508,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://slst.shanghaitech.edu.cn/djy/) - Related Papers: - [Nature 2018] β-barrel design: https://www.nature.com/articles/s41586-018-0509-0 -
+
Fang Bai 白芳 @@ -1517,7 +1530,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](http://zhanglab.sibcb.ac.cn/zhanglab/) - Related Papers: - [JACS 2018] 设计含有金属离子簇的蛋白:https://pubs.acs.org/doi/10.1021/jacs.7b08261 -
+ ### Zhejiang University 浙江大学
@@ -1533,7 +1546,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://fajieyuan.github.io/) - Related Papers: - [ICLR 2024] SaProt: https://www.biorxiv.org/content/10.1101/2023.10.01.560349.abstract -
+
Longxin Cao 曹龙兴 @@ -1541,7 +1554,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www.westlake.edu.cn/faculty/longxing-cao.html) - Related Papers: - [Nature 2022] RifGen/RifDock: https://www.nature.com/articles/s41586-022-04654-9, [Science 2020] SARS-CoV-2 minibinder design: https://www.science.org/doi/full/10.1126/science.abd9909 -
+
Zibo Chen 陈子博 @@ -1549,7 +1562,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://chenlab.org/) - Related Papers: - [Science 2020] Logic gate design: https://www.science.org/doi/full/10.1126/science.aay2790, [Nature 2019] Orthogonal protein heterodimers design: https://www.nature.com/articles/s41586-018-0802-y -
+
Peilong Lu 卢培龙 @@ -1557,7 +1570,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www.labxing.com/lab/693/home) - Related Papers: - [Science 2018] Transmembrane protein design: https://www.science.org/doi/full/10.1126/science.aaq1739 -
+
Jianyang Zeng 曾坚阳 @@ -1571,14 +1584,16 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www.westlake.edu.cn/faculty/stan-zq-li.html) - Related Papers: - [ICLR 2023] PiFold: https://arxiv.org/abs/2209.12643 -
+ ### Zhejiang University of Technology 浙江工业大学
Guijun Zhang 张贵军 - Lab website: [Link](http://zhanglab-bioinf.com/people/guijunz/) -
+- Related Papers: + - [Briefings in Bioinformatics 2024] SPDesign: https://academic.oup.com/bib/article-lookup/doi/10.1093/bib/bbae146 + ### Sun Yat-sen University 中山大学
@@ -1601,7 +1616,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://www.sigs.tsinghua.edu.cn/lfr/main.htm) - Related Papers: [ - Nat Catalysis] DLKcat: https://www.nature.com/articles/s41929-022-00798-z -
+ ### SUSTech 南方科技大学
@@ -1610,7 +1625,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://sustech.edu.cn/zh/faculties/lizhe.html) - Related Papers: - [Nat Materials] 蛋白质晶体设计:https://www.nature.com/articles/s41563-023-01683-1 -
+ ### USTC 中国科学技术大学
@@ -1618,8 +1633,10 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://biocomp.ustc.edu.cn/) - Related Papers: - - [Nature Computational Science 2024] ABACUS-R: https://www.nature.com/articles/s43588-022-00273-6, [Nature 2022] SCUBA: https://www.nature.com/articles/s41586-021-04383-5 -
+ - [Nature Computational Science 2024] ABACUS-R: https://www.nature.com/articles/s43588-022-00273-6 + - [Nature 2022] SCUBA: https://www.nature.com/articles/s41586-021-04383-5 + - [Nature Methods 2024] SCUBA-D: https://www.nature.com/articles/s41592-024-02465-6 +
Qi Liu 刘淇 @@ -1627,7 +1644,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](http://staff.ustc.edu.cn/~qiliuql/) - Related Papers: - [NeurIPS 2023] FAIR: https://arxiv.org/abs/2310.02553 -
+ ### Xiamen University 厦门大学
@@ -1636,7 +1653,7 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Lab website: [Link](https://informatics.xmu.edu.cn/info/1425/25349.htm) - Related Papers: - [PB-GPT](https://doi.org/10.1016/j.str.2024.07.016) -
+ ### Shandong University 山东大学
@@ -1653,4 +1670,4 @@ We apologize if we've missed your lab or labs you're familiar with. Suggestions - Related Papers: - [DeepEvo](https://spj.science.org/doi/full/10.34133/bdr.0031) - [Diffusion model for P450 generation](https://spj.science.org/doi/10.34133/research.0413) -
+