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Lab W |

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life decoders

Explore the World & Adventure in Science


ABOUT US

Who Are We

We are a group of scientists from 🏫 ZJU-UoE Institute working on decoding puzzles in bio-medical sciences. Topics we are interested in include epigenetic regulation of transposable elements in stem cells and cancer, genomics technology and bioinformatic algorithm development.
By combining both "wet lab" (experimental 🔬) and "dry lab" (computational 💻) approaches, we hope to provide our unique expertises in advancing our understandings for bio-medical sciences.

我们是一群来自浙江大学爱丁堡大学联合学院 🏫的生物医学方向的科学家。我们研究的内容包括干细胞细胞命运决定中的 表观遗传调控机制 基因组学大数据挖掘以及 生物信息算法及工具 的开发。我们实验室由一群来自生物学、临床医学、基础医学、生物医学以及生物信息学不同学科背景的博士后、研究生、科研助理及本科生组成。通过”干实验“(计算相关 💻)以及”湿实验“(实验技术 🔬)相结合的手段,我们希望以我们独特的视角来研究生物医学中重要的科学问题。

RESEARCH

We Are Exploring

Item 1

Biomedical science UNMASKING CELL PLURIPOTENCY

  1. Epigenetic regulation of cell fate determination in human embryonic stem cells and mesenchymal stem cells
  2. Epigenetic mechanisms of retrotransposon silencing in mammalian systems

Item 1

Bioinformatics DATA-DRIVEN BIOMEDICINE

  1. Development of bioinformatics algorithms and databases for epigenetic multiomics and single-cell omics data
  2. Development of computational Immunology Algorithm based on deep learning

MEMBERS

Meet Our Team

Wanlu Liu

Wanlu Liu, Ph.D. Principal Investigator

Assistant Professor, ZJU-UoE institute, Zhejiang University

📧 wanluliu@intl.zju.edu.cn 👩🏻‍💻 Personal Homepage @ ZJU
Siqian jin

Siqian Jin PH.D. Student

M.S., Clinal Medicine (Ophthalmology), Wenzhou Medical University

📧 siqianjin@intl.zju.edu.cn
Dengfeng Ruan

Dengfeng Ruan Ph.D. STUDENT, CO-MENTORED WITH DR.SHEN WEILIANG

M.S., Clinical Medicine (Surgery), Zhejiang University

📧 dfruan@zju.edu.com
Xinyu Xiang

Xinyu Xiang Ph.D. Student

B.S., Applied Bioscience, Zhejiang University

📧 xxyxiangxinyu@163.com
Bing Gao

Bing Gao PH.D. Student

B.Eng.,Bioengineering, Beijing University of Chemical Technology

📧 971223798@qq.com
Lize Wu

Lize Wu Ph.D. Student

Major in Biomedical science, ZJU-UoE Institute, Zhejiang University

📧 lize.17@intl.zju.edu.cn
Zhejian Yu

Zhejian Yu Master Student

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 Zhejian.19@intl.zju.edu.cn
yuhui Yu

Yuhui Chen Master Student

Major in Marine Biology, Hohai University

📧 yuhui.23@intl.zju.edu.cn
weikai Yu

Weikai Shi Master Student

Major in Biotechnology, Harbin Institute of Technology

📧 weikai.23@intl.zju.edu.cn
linnan Yu

Linnan Guo Master Student

Major in Information Management and Information System, China Pharmaceutical University

📧 22360240@zju.edu.cn
luyao Zhang

Luyao Zhang Master Student

Major in Bioengineering, Ningbo Tech University

📧 luyao.24@intl.zju.edu.cn
hongchen Zhu

Hongchen Zhu Master Student

Major in Biological Sciences, Zhejiang University

📧 hongchen.24@intl.zju.edu.cn
jiongxin Yu

Jiongxin Wang PH.D. Student

Major in Management and information system, University of Manchester

📧 jiongxin.23@intl.zju.edu.cn
ziyang Yu

Ziyang Li PH.D. Student

Major in Clinical medicine, Shandong University

📧 ziyang.23@intl.zju.edu.cn
xirui Yu

Xirui Yin PH.D. Student

Major in pharmacy, Jilin University

📧 xirui1.22@intl.zju.edu.cn
bingkang Yu

Bingkang Zhao UNDERGRADUATE RESEARCHER

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 bingkang.22@intl.zju.edu.cn
zhouyue Zhu

Zhouyue Zhu UNDERGRADUATE RESEARCHER

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧zhouyue.23@intl.zju.edu.cn
anni Gao

Anni Gao UNDERGRADUATE RESEARCHER

Major in Biomedical Informatics, ZJU-UoE Institute, Zhejiang University

📧anni.21@intl.zju.edu.cn
hongan Chen

Hongan Chen UNDERGRADUATE RESEARCHER

Major in Biological Sciences, ZJU-UoE Institute, Zhejiang University

📧hongan.21@intl.zju.edu.cn
Cat

Meet Our Cats

sql

juno

Host: Wanlu Liu

sql

Sql

Host: Wanlu Liu

Cola

Cola

Host: Junxin lin

tutu

Tutu

Host: Junxin lin

Kiki

Kiki

Host: Xinyu Xiang

lark

Lark

Host: Lize Wu

Qiuqiu

Qiuqiu

Host: Ruonan Tian

mibu

Mibu

Host: Siqian Jin

littleeggette

Miss Mei

Host: Siqian Jin

ALUMNI

Previous Students

Kaiwen Luo

Kaiwen Luo current Ph.D. Student at Caltech

📧 kluo@caltech.edu
Ziyuan Han

Ziyuan Han Current Ph.D. Student in UCSD

B.S., Biomedical Science, Zhejiang University
B.S., Biomedical Science, University of Edinburgh

📧z2han@ucsd.edu
Shiqi Xu

Shiqi Xu Undergraduate Researcher

Major in Biomedical Sciences, ZJU-UoE Institute, Zhejiang Univeristy

📧 shiqix.18@intl.zju.edu.cn
Adele Valeria

Adele Valeria Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang Univeristy

📧 Valeria.18@intl.zju.edu.cn
Hanqi Xie

Hanqi Xie Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang Univeristy

📧 Hanqi.18@intl.zju.edu.cn
Yanran Qiu

Yanran Qiu Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang Univeristy

📧 yanran.18@intl.zju.edu.cn
Chook Hou Wei

Chook Hou Wei Undergraduate Researcher

Major in Biomedical Science, ZJU-UoE Institute, Zhejiang University

📧 houwei.18@intl.zju.edu.cn
Jingkai Chen

Jingkai Chen Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 jingkai.19@intl.zju.edu.cn
Weijian Wang

Weijian Wang Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 weijian.19@intl.zju.edu.cn
Pengshan Li

Pengshan Li Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute,Zhejiang University

📧 pengshan.19@intl.zju.edu.cn
Lingyuan Ye

Lingyuan Ye Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 lingyuan.19@intl.zju.edu.cn
Lanqi Wu

Lanqi Wu Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang Univeristy

📧 lanqi.18@intl.zju.edu.cn
jiayi Shen

Jiayi Shen Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang Univeristy

📧 jiayi.18@intl.zju.edu.cn
Yiwei Zhang

Yiwei Zhang Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 yiweiz.18@intl.zju.edu.cn
Zhiheng Jia

Zhiheng Jia Undergraduate Researcher

Major in Biomedical Science, ZJU-UoE Institute, Zhejiang University

📧 zhihengjia.17@intl.zju.edu.cn
Ge Lu

Ge Lu Undergraduate Researcher

Major in Biomedical Science, ZJU-UoE Institute, Zhejiang University

📧 ge.17@intl.zju.edu.cn
Yuxing Zhou

Yuxing Zhou Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 yixing.18@intl.zju.edu.cn
Zhikai Xu

Zhikai Xu Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 zhikai.18@intl.zju.edu.cn
Jingrui Lu

Jingrui Lu Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 jingrui.20@intl.zju.edu.cn
Jinchun Zhang

Jinchun Zhang Undergraduate Researcher

Major in Biomedical Science, ZJU-UoE Institute, Zhejiang University

📧 jinchun.18@intl.zju.edu.cn
junxin Zhang

junxin Lin postdoctoral Researcher

Ph.D. in Stem cell and regenerative medicine, Zhejiang University

📧 linjunxin@zju.edu.cn
yixin Zhang

yixin Guo Ph.D. Student,Co-mentored with Dr.Wang Lie

B.Eng., Bioinformatics, Southwest JiaoTong University

📧 yixinguon@zju.edu.cn
Yaqi Su

Yaqi Su Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 yaqi.19@intl.zju.edu.cn
Ruihong Yuan

Ruihong Yuan Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 ruihong.19@intl.zju.edu.cn
Xinyue Huang

Xinyue Huang Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 xinyue.20@intl.zju.edu.cn
Xinyue Huang

Shiyao Li Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 shiyao.19@intl.zju.edu.cn
Xinyue Huang

Meiting Gong Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 meiting.19@intl.zju.edu.cn
Xinyi Chen

Xinyi Chen Master Student

Major in Horticulture, Zhejiang University

📧3170100513@zju.edu.cn
Yiwen Xu

Yiwen Xu Master Student

Major in Clinical medicine, Nanjing Medical University

📧 22118103@zju.edu.cn
yutong Yu

Yutong Huang UNDERGRADUATE RESEARCHER

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 yutongh.20@intl.zju.edu.cn
PUBLICATIONS

Our Works

*co-first author, #Corresponding author, members of our group are underlined.

2024

44. Xue, Z.* , Wu, L.* , Tian, R. , Gao, B. , Zhao, Y., Bing, H., Zhao, B. , Li, Y. , Zhu, K., Wang, L., Yao, J.#, Liu, W.# & Lu, L.#, 2024. Integrative mapping of human CD8+ T cells in inflammation and cancer. Nature Methods . link
43. Zhang, J.*, Tian, R.* , Liu, J.*, Yuan, J.*, Zhang, S., Chi, Z., Yu, W., Yu, Q., Wang, Z., Chen, S., Li, M., Yang, D., Hu, T., Deng, Q., Lu, X., Yang, Y., Zhou, R., Zhang, X., Liu, W.# , and Wang, D.#, 2024. A two-front nutrient supply environment fuels small intestinal physiology through differential regulation of nutrient absorption and host defense. Cell p6251-6271.e20 link
42. Chen, Y.*, Yan, Y.*, Tian, R. , Sheng, Z., Li, L., Chen, J., Liao, Y., Wen, Y., Lu, J., Liu, X., Sun, W., Wu, H., Liao, Y., Zhang, X., Chen, X., An, C., Zhao, K., Liu, W. , Gao, J., Hay, D. C., Ouyang, H.# 2024. Chemically programmed metabolism drives a superior cell fitness for cartilage regeneration. Science Advances , 10(37): eadp4408. link
41. Su, Y.* , Yu, Z. , Jin, S. , Ai, Z. Yuan, R. , Chen, X. , Xue, Z. , Guo, Y. , Chen, D., Liang, H., Liu, Z., Liu, W.# , 2024. Comprehensive assessment of mRNA isoform detection methods for long-read sequencing data. Nature Communications , 15, 3972 link
40. Guo, Y.* , Xue, Z.* , Gong, M. , Jin, S. , Wu, X. , Liu, W.# , 2024.CRISPR-TE: a web-based tool to generate single guide RNAs targeting transposable elements. Mobile DNA , 3. link

2023

39. Tian, R.* , Xue, Z.* , Ruan, D.* , Chen, P., Xu, Y., Dai, C., Shen, W., Ouyang, H.#, Liu, W.# , Lin, J.# , 2023. MSdb: An integrated expression atlas of human musculoskeletal system. iScience , 26(6). link

2022

38. Ai, Z.*, Xiang, X.* , Xiang, Y.*, Szczerbinska, I.*, Qian, Y.*, Xu, X., Ma, C., Su, Y. , Gao, B. , Shen, H., Ramli, M., Chen, D., Liu, Y., Hao, J., Ng, H., Zhang, D. #, Chan, Y. #, Liu, W.# , Liang, H.# 2022. Kruppel-like factor 5 rewires NANOG regulatory network to activate human naive pluripotency specific LTR7Ys and promote naive pluripotency. Cell Reports , 40, 111240. link
37. Wang, L.*, You, X.*, Ruan, D.* , Shao, R., Dai, H., Shen, W., Xu, G., Liu, W.# , Zou, W. # 2022. TET enzymes regulate skeletal development through increasing chromatin accessibility of RUNX2 target genes. Nature communications. Nature Communications , 13, 4709. link
36. Xiang,X.* , Tao,Y., DiRusso,J., Hsu, F.M., Zhang, J. , Xue, Z. , Pontis,J., Trono,D., Liu, W.# , Clark,A. #, 2022. Human reproduction is regulated by retrotransposons derived from ancient Hominidae-specific viral infections, Nature Communications , 13, 463. link
35. Lin, J.* , Yang,Y., Zhou, W., Dai, C. , Chen,X., Xie,Y., Han,S., Liu,H., Hu,Y., Tang,C., Bunpetch,V., Zhang,D., Chen,Y., Zou,X., Chen,D., Liu, W.# , Ouyang,H. #, 2022. Single cell analysis reveals inhibition of angiogenesis attenuates the progression of heterotopic ossification in Mkx−/− mice, Bone research , 10, 4. link

2021

34. Ruan,D.* , Tang,C.*, Fei,Y*, Qian,S., Xiang,X. ,Xu,J., Huang,Z., Chen,X., Heng,B., Yin,Z., Chen,W., Liu, W. , Shen,W.#, Ouyang,H.#; 2021. Early-Stage Primary Anti-inflammatory Therapy Enhances the Regenerative Efficacy of Platelet-Rich Plasma in a Rabbit Achilles Tendinopathy Model, The American journal of sports medicine , 49(12): 3357-3371. link
33. Wu, L.* , Xue, Z.* , Jin, S. , Zhang, J. , Guo, Y. , Bai, Y., Jin, X., Wang, C., Wang, L., Liu, Z., Wang, J.Q., Lu, L.#, Liu, W.# , 2021. huARdb: human Antigen Receptor database for interactive clonotype-transcriptome analysis at the single-cell level, Nucleic Acids Research , gkab867. link
32. Jin, S.* , Xue, Z.* , Zhang, J. , Wang, Z., Zhang, J., Chen, D.#, Liu, W.# , Lin, J.# , 2021. Identification of SRSF3 target mRNAs using inducible TRIBE. Biochemical and Biophysical Research Communications. link
31. Hancock GV, Liu, W. , Peretz,L, Chen,D, Gell,J., Collier,AJ, Zamudio,JR, Plath,K, Clark,AT.#, 2021. Divergent roles for KLF4 and TFCP2L1 in naive ground state pluripotency and human primordial germ cell development. Stem Cell Res 55:102493. link
30. Liu, W. *# , J. Gallego-Bartolomé*, Y. Zhou , Z. Zhong, M. Wang, S. P. Wongpalee, J. Gardiner, S. Feng, P. H. Kuo and S. E. Jacobsen.#, 2021. Ectopic targeting of CG DNA methylation in Arabidopsis with the bacterial SssI methyltransferase. Nature Communications 12(1): 3130. link
29. Guo, Y. , Xue, Z. , Yuan, R. , Li, J., Pastor, W. & Liu, W.# , 2021. RAD: a web application to identify region associated differentially expressed genes. Bioinformatics , btab075. link
28. Zhong, Z., Feng, S., Duttke, S.H., Potok, M.E., Zhang, Y. , Gallego-Bartolomé, J., Liu, W.# & Jacobsen, S.E.#, 2021. DNA methylation-linked chromatin accessibility affects genomic architecture in Arabidopsis. Proceedings of the National Academy of Sciences . 118(5), e2023347118. link

2020

27. Yuan, C.*, Pan, Z.*, Zhao, K.*, Li, J., Sheng, Z., Yao, X., Liu, H., Zhang, X., Yang, Y., Yu, D., Zhang, Y., Xu, Y., Zhang, Z., Huang, T., Liu, W. & Ouyang, H.#, 2020. Classification of four distinct osteoarthritis subtypes with a knee joint tissue transcriptome atlas. Bone Research , 8, 38 link
26. Cinkornpumin, J.K., Kwon, S.Y., Guo, Y. , Hossain, I., Sirois, J., Russett, C.S., Tseng, H., Okae, H., Arima, T., Duchaine, T.F., Liu, W. & Pastor, W.A.#, 2020. Naive Human Embryonic Stem Cells Can Give Rise to Cells with a Trophoblast-like Transcriptome and Methylome. Stem Cell Reports . link
25. Gell, J. J.*, Liu, W. , Sosa, E., Chialastri, A., Hancock, G., Tao, Y., Wamaitha, S. E., Bower, G., Dey, S. S., Clark, A. T.#, 2020. An Extended Culture System that Supports Human Primordial Germ Cell-like Cell Survival and Initiation of DNA Methylation Erasure. Stem Cell Reports , 14(3), 433-446. link

2019

24. Wongpalee, S. P.*, Liu, S.*, Gallego-Bartolomé, J.*, Leitner, A., Aebersold, R., Liu, W. , Yen L., Nohales, M. A., Kuo, P. H., Wohlschlegel J. A., Feng, S., Kay, S. A., Zhou, Z.#, Jacobsen, S. E#, 2019. CryoEM structures of Arabidopsis DDR complexes involved in RNA-directed DNA methylation. Nature Communications , 10(1), 3916. link
23. Chen, D.*, Sun, N.*, Hou, L.*, Kim, R., Faith, J., Aslanyan, M., Tao Y., Zheng Y., Fu J., Liu W. , Manolis K.#, Clark, A#, 2019. Human Primordial Germ Cells Are Specified from Lineage-Primed Progenitors. Cell Reports ,29(13), 4568-4582.e4565. link
22. Lin, F.*, Meng, X.*, Guo, Y. , Cao, W., Liu, W. , Xia, Q., Hui, Z., Chen, J., Hong, S., Zhang, X., Wu, C., Wang, D., Wang, J., Lu, L., Qian W., Wei, L., Wang, L.#,2019. Epigenetic initiation of the TH17 differentiation program is promoted by Cxxc finger protein 1. Science Advances ,5,eaax1608 link
21. Potok, M.E.*, Wang, Y.*, Xu, L., Zhong, Z., Liu, W. , Feng, S., Naranbaatar, B., Rayatpisheh, S., Wang, Z., Wohlschlegel, J.E., Ausin, I.#, Jacobsen, S.E.#, 2019. Arabidopsis SWR1-associated protein methyl-CpG-binding domain 9 is required for histone H2A. Z deposition. Nature Communications ,10(1), p3352 link
20. Nohales, M.A., Liu, W. , Duffy, T., Nozue, K., Sawa, M., Pruneda-Paz, J.L., Maloof, J.N., Jacobsen, S.E.# and Kay, S.A.#, 2019. Multi-level Modulation of Light Signaling by GIGANTEA Regulates Both the Output and Pace of the Circadian Clock. Developmental Cell , 49(6), pp.840-851. link
19. Gallego-Bartolome, J.*, Liu, W.* , Kuo, P.H., Feng, S., Ghoshal, B., Gardiner, J., Zhao, J.M.C., Park, S.Y., Chory, J. and Jacobsen, S.E.#, 2019. Co-targeting RNA polymerases IV and V promotes efficient de novo DNA methylation in Arabidopsis. Cell , 176(5), pp.1068-1082. link
18. Papikian, A., Liu, W. , Gallego-Bartolomé, J. and Jacobsen, S.E.#, 2019. Site-specific manipulation of Arabidopsis loci using CRISPR-Cas9 SunTag systems. Nature Communications , 10(1), p.729. link
17. Stoddard, C.I., Feng, S., Campbell, M.G., Liu, W. , Wang, H., Zhong, X., Bernatavichute, Y., Cheng, Y., Jacobsen, S.E.# and Narlikar, G.J.#, 2019. A Nucleosome Bridging Mechanism for Activation of a Maintenance DNA Methyltransferase. Molecular Cell , 73(1), pp.73-83. link

2018

16. Chen, D.*, Liu, W.* , Zimmerman, J., Pastor, W.A., Kim, R., Hosohama, L., Ho, J., Aslanyan, M., Gell, J.J., Jacobsen, S.E. and Clark, A.T., 2018. The TFAP2C-Regulated OCT4 Naive Enhancer Is Involved in Human Germline Formation. Cell Reports , 25(13), pp.3591-3602. link
15. Harris, C.J.*, Scheibe, M.*, Wongpalee, S.P., Liu, W. , Cornett, E.M., Vaughan, R.M., Li, X., Chen, W., Xue, Y., Zhong, Z. and Yen, L., 2018. A DNA methylation reader complex that enhances gene transcription. Science , 362(6419), pp.1182-1186. link
14. Pastor, W.A., Liu, W. , Chen, D., Ho, J., Kim, R., Hunt, T.J., Lukianchikov, A., Liu, X., Polo, J.M., Jacobsen, S.E.# and Clark, A.T.#, 2018. TFAP2C regulates transcription in human naive pluripotency by opening enhancers. Nature Cell Biology , 20(5), p.553. link
13. Liu, W.* , Duttke, S.H.*, Hetzel, J., Groth, M., Feng, S., Gallego-Bartolome, J., Zhong, Z., Kuo, H.Y., Wang, Z., Zhai, J., Chory, J., Jacobsen, S.E.#, 2018. RNA-directed DNA methylation involves co-transcriptional small-RNA-guided slicing of polymerase V transcripts in Arabidopsis. Nature Plants , 4(3), p.181. link
12. Gallego-Bartolomé, J.*, Gardiner, J.*, Liu, W.* , Papikian, A.*, Ghoshal, B., Kuo, H.Y., Zhao, J.M.C., Segal, D.J. and Jacobsen, S.E.#, 2018. Targeted DNA demethylation of the Arabidopsis genome using the human TET1 catalytic domain. Proceedings of the National Academy of Sciences , 115(9), pp.E2125-E2134. link
11. Zhang, Y.*, Harris, C.J.*, Liu, Q.*, Liu, W. , Ausin, I., Long, Y., Xiao, L., Feng, L., Chen, X., Xie, Y., Chen, X., Zhan, L., Feng, S., Li, J.J., Wang, H.#, Zhai, J.#, Jacobsen, S.E.#, 2018. Large-scale comparative epigenomics reveals hierarchical regulation of non-CG methylation in Arabidopsis. Proceedings of the National Academy of Sciences , 115(5), pp.E1069-E1074. link

2017

10. Clark, A.T.#, Gkountela, S., Chen, D., Liu, W. , Sosa, E., Sukhwani, M., Hennebold, J.D. and Orwig, K.E., 2017. Primate primordial germ cells acquire transplantation potential by Carnegie stage 23. Stem Cell Reports , 9(1), pp.329-341. link
9. Chen, D., Liu, W. , Lukianchikov, A., Hancock, G.V., Zimmerman, J., Lowe, M.G., Kim, R., Galic, Z., Irie, N., Surani, M.A., Jacobsen, S.E., Clark, A.T.# 2017. Germline competency of human embryonic stem cells depends on eomesodermin. Biology of Reproduction , 97(6), pp.850-861. link

2016

8. Ausin, I., Feng, S., Yu, C., Liu, W. , Kuo, H.Y., Jacobsen, E.L., Zhai, J., Gallego-Bartolome, J., Wang, L., Egertsdotter, U., Street, N.R., Jacobsen, S.E.#, Wang, H.#, 2016. DNA methylome of the 20-gigabase Norway spruce genome. Proceedings of the National Academy of Sciences , 113(50), pp.E8106-E8113. link
7. Li, S., Yen, L., Pastor, W.A., Johnston, J.B., Du, J., Shew, C.J., Liu, W. , Ho, J., Stender, B., Clark, A.T. and Burlingame, A.L., Daxinger, L.#, Patel, D.J#, Jacobsen, S.E.#, 2016. Mouse MORC3 is a GHKL ATPase that localizes to H3K4me3 marked chromatin. Proceedings of the National Academy of Sciences , 113(35), pp.E5108-E5116. link
6. Harris, C.J.*, Husmann, D.*, Liu, W. , El Kasmi, F., Wang, H., Papikian, A., Pastor, W.A., Moissiard, G., Vashisht, A.A., Dangl, J.L., Wohlschlegel, J.A., Jacobsen, S.E.#, 2016. Arabidopsis AtMORC4 and AtMORC7 form nuclear bodies and repress a large number of protein-coding genes. PLoS Genetics , 12(5), p.e1005998. link
5. Pastor, W.A.*, Chen, D.*, Liu, W.* , Kim, R., Sahakyan, A., Lukianchikov, A., Plath, K., Jacobsen, S.E.# and Clark, A.T.#, 2016. Naive human pluripotent cells feature a methylation landscape devoid of blastocyst or germline memory. Cell Stem Cell , 18(3), pp.323-329. link

2015

4. Zhai, J.*, Bischof, S.*, Wang, H., Feng, S., Lee, T.F., Teng, C., Chen, X., Park, S.Y., Liu, L., Gallego-Bartolome, J., Liu, W. , Henderson, I.R., Meyers, B.C., Ausin, I.#, Jacobsen, S.E.#, 2015. A one precursor one siRNA model for Pol IV-dependent siRNA biogenesis. Cell , 163(2), pp.445-455. link

2014

3. Pastor, W.A.*, Stroud, H.*, Nee, K., Liu, W. , Pezic, D., Manakov, S., Lee, S.A., Moissiard, G., Zamudio, N., Bourc’his, D. and Aravin, A.A., Clark, A.T.#, Jacobsen, S.E.#, 2014. MORC1 represses transposable elements in the mouse male germline. Nature Communications , 5, p.5795. link

2013

2. Jiang, Y., Chen, L., Zhang, S., Tong, T., Zhang, W., Liu, W. , Xu, G., Tuan, R.S., Heng, B.C., Crawford, R. and Xiao, Y.,Ouyang, H.W.#, 2013. Incorporation of bioactive polyvinylpyrrolidone–iodine within bilayered collagen scaffolds enhances the differentiation and subchondral osteogenesis of mesenchymal stem cells. Acta Biomaterialia , 9(9), pp.8089-8098. link

2012

1. Zhang, S., Jiang, Y.Z., Zhang, W., Chen, L., Tong, T., Liu, W. , Mu, Q., Liu, H., Ji, J., Ouyang, H.W. and Zou, X.#, 2012. Neonatal desensitization supports long-term survival and functional integration of human embryonic stem cell-derived mesenchymal stem cells in rat joint cartilage without immunosuppression. Stem Cells and Development , 22(1), pp.90-101. link
BIOINFORMATICS

Web tools / Databases

  1. Region Associated DEG START TRYING!

    RAD - Region Associated DEG is a web tool to identify region associated differentially expressed genes.

  2. huARdb

    The Human Antigen Receptor Database.

  3. germlineTE

    The germlineTE single-cell dataset visualizer.

  4. MSdb

    An integrated expression atlas of human musculoskeletal system.

NEWS

What just happened in the lab

2024/09

  • Welcome the joining of our new visiting master student Luyao Zhang, Hongchen Zhu. 欢迎新成员张璐瑶, 朱洪辰加入实验室!

2024/05

  • All members of the lab went to the Shanghai Disneyland for retreat 实验室全体正式成员在上海迪士尼乐园进行愉快的团建!

2023/11

  • Congrats Ruonan Tian for winning National scholarship for postgraduate students. 恭喜实验室生物信息学专业博士研究生田若楠获得2023年研究生国家奖学金!

2023/09

  • Welcome the joining of our new visiting master student Yuhui Chen, Linnan Guo and Weikai Shi. 欢迎新成员陈雨卉,国林楠和石玮凯加入实验室!

2022/12

  • Welcome the joining of our new visiting Ph.D. student Ziyang Li. Ziyang is currently the Ph.D. student in clinical medicine from the The Second Affiliated Hospital, Zhejiang University School of Medicine. 欢迎新成员李子阳(浙大附属第二医院,博士研究生)加入实验室!

2022/11

  • Congrats Xinyu Xiang for winning National scholarship for postgraduate students. 恭喜实验室生物信息学专业博士研究生相欣雨获得2022年研究生国家奖学金!

2022/6

  • Lab at All-in Cafe.
  • Congratulation to Ziwei Xue, Siqian Jin, and Xinyu Xiang for winning the First prize and third prize of the Student Crossover Innovation Competition in the Campus Poster Day. 恭喜实验室生物信息学专业博士研究生薛子为,相欣雨和科研助理金飔倩同学获得校区学术交叉创新一等奖和三等奖!

2021/12

  • Welcome the joining of our new visiting master student Yiwen Xu. Yiwen is currently the master student in clinical medicine from the The Second Affiliated Hospital, Zhejiang University School of Medicine. 欢迎新成员徐艺文(浙大附属第二医院,硕士研究生)加入实验室!

2021/11

  • Congrats Yixin Guo for winning National scholarship for postgraduate students. 恭喜实验室生物信息学专业博士研究生郭奕鑫获得2021年研究生国家奖学金!

2021/9

  • Welcome the joining of our new Ph.D. Students Lize Wu, Ziwei Xue and our two new master students Ruonan Tian, Xinyi Chen.
  • Congrats Lize Wu et al. for publishing on Nucleic Acid Research. This is a collaboration project with Dr. Lu from ZJE.
  • Congrats Siqian Jin et al., for publishing on Biochemical and Biophysical Research Communications.

2021/8

  • Congrats Wanlu Liu for receiving approval for funding from The General Program of National Natural Science Foundation of China
  • Congrats Wanlu Liu for publishing on Stem Cell Research. This is a collaboration project with Dr. Amander T. Clark from UCLA, USA.

2021/7

  • Congrats Wanlu Liu for receiving Justice, Equity, Diversity and Inclusion (JEDI) awards from the Life Science Editors Foundation (LSEF). For more information, please visit http://lifescienceeditors.org/

2021/5

  • Lab hike to Jing Mountain in Hangzhou. We enjoy the outdoors.
OUTSIDEOFSCIENCE

Wow.

CONTACT US

Get In Touch

Mailing Address

A314, ZJU-UoE Institute,
718 East Haizhou Rd., Haining, Zhejiang 314400, P.R. China
email: wanluliu@intl.zju.edu.cn

通讯地址

A314, 浙江大学爱丁堡大学联合学院
浙江省海宁市海州东路 718 号,邮编:314400
电子邮箱:wanluliu@intl.zju.edu.cn

Thanks for your interest in LabW 😎

We are alwasys looking for motivated and creative researchers specialized in Molecular Biology, Cellular Biology, Bioinformatics, Computer Science, Statistics and Engineering to join us.

If you are interested in being part of the Lab W, please send your CV and a short research interests to wanluliu@intl.zju.edu.cn

Positions available are : postdocs, graduate students, research assistants , undergraduate research interns.


感谢您对我们实验室的兴趣,我们实验室长期欢迎不同背景包括分子生物学、细胞生物学、生物信息学、计算机科学、统计学、和工科背景的博士后、研究生、科研助理、本科生加入我们。如果你对加入我们感兴趣,欢迎您发送一份简历(CV)以及一段简短的研究兴趣到wanluliu@intl.zju.edu.cn

Wanlu Liu

Wanlu Liu is an Assistant Professor in the ZJE institute at Zhejiang University. She is a former postdoctoral researcher in the department of Molecular Cellular and Developmental Biology at the University of California, Los Angeles, where she received a Ph.D. in molecular biology from the Molecular Biology Institute. She is passionate about building bioinformatics tools, mining big genomics data, and uncovering epigenetic mechanisms. She enjoys painting, photography, and playing badminton. She dreams of one day going pro in photography.

刘琬璐,浙江大学爱丁堡大学联合学院助理教授、研究员、博士生导师。本科毕业于浙江大学基础医学国家理科基地班,取得医学学士学位。博士毕业于美国加州大学洛杉矶分校。研究兴趣为:构建生物信息学分析工具、挖掘基因组学大数据以及探索表观遗传调控机制。在学术与教学以外,她还喜欢画画、摄影以及羽毛球。曾在某游戏中连抽600张神秘符咒不出SSR从而达成”非洲大阴阳师“称号。

个人主页: https://person.zju.edu.cn/labw

Siqian Jin

Siqian Jin is a PhD student at Zhejiang University, ZJU-UoE institute. She gained a M.S. (Ophthalmology) from School of Ophthalmology & Optometry, Wenzhou Mecdical University. Three years'research training in Laboratory for Stem Cell & Retinal Regeneration let her specialize in stem cell related experiments. She has a wide range of hobbies, especially Chinese chess, woodworking, Kendo, and running.

金飔倩,浙江大学爱丁堡大学联合学院博士生。本科毕业于山东大学临床医学院临床医学专业。硕士毕业于温州医科大学眼视光学院、生物医学工程学院眼科学专业。她擅长干细胞相关实验,尤其是胚胎干细胞。她业余爱好广泛,比较喜欢中国象棋,木工手工,剑道,长跑,另外还很喜欢吃各种小吃美食。

Dengfeng Ruan

Dengfeng Ruan is a PhD student majoring in orthopedics at Zhejiang University School of Medicine. He obtained a M.S. in Surgery and recived standardized residency training in The Second Affiliated Hospital, Zhejiang University School of Medicine. And he now receives scientific research training in Lab W. His research intersects include development/regeneration of musculoskeletal system and biology of mesenchymal stem cells. He enjoys traveling and experiencing various cultures, sights and lives. He also had a wide-range interests in cooking, reading, handicraft and so on.

阮登峰,浙江大学医学院外科学(骨科)博士生。本科毕业于温州医科大学临床医学专业,硕士毕业于浙江大学医学院外科学专业,并于浙江大学医学院附属第二医院完成住院医师规范化培训。目前他在实验室接受联合培养,研究方向为运动系统的发育与再生以及间充质干细胞的分化命运调控。他的业余爱好广泛,对做饭、手工、羽毛球、乒乓球等都有兴趣,另外他喜欢旅行去见各种新的风景。

Xinyu Xiang

Xinyu Xiang is a PhD student majoring in bioinformatics at ZJE institution of Zhejiang University. She obtained an Applied Bioscience' Degree from College of Agriculture and Biotechnology in Zhejiang University. By making use of multi-omics data integration analysis as well as stem cell cultivation and induction techniques, she is exploring the mechanism of stem cell and early embryo development. Ms.Xiang has a wide range of interests, she likes experience local culture while traveling and tries to be an avid gym goer.

相欣雨,浙江大学爱丁堡大学联合学院生物信息学博士生。本科毕业于浙江大学农业与生物技术学院。她的研究方向是:利用多组学数据整合分析与挖掘和干细胞培养与诱导技术探索干细胞与早期胚胎发育调控机制。她喜欢说走就走的旅行,同时也是健身房养老型选手。

Bing Gao

Bing Gao is a PhD Student of bioinformatics at Zhejiang University. He graduated from Beijing University of Chemical Technology and majored in Bioengineering. He currently engaged in protein purification in the laboratory. He loves sports, fitness + various ball sports, especially running and trail, and often participates in marathon and trail running events.

高兵是浙江大学生物信息学专业的博士生,本科毕业于北京化工大学生物工程专业,目前在实验室从事蛋白纯化工作。他热爱运动,健身 + 各种球类运动,尤其喜欢跑步和Trail,经常参加马拉松赛事和越野跑赛事。

Ziwei Xue

Ziwei Xue is a PhD student major in bioinformatics at ZJE institution of Zhejiang University. My research interests include: Developing bioinformatic applications to analyze multi-omics data. I love exploring unknown in the field of bioinformatics, and I also enjoy designing graphics and websites. Coding is my both professional and amateurish habit. I am quite an Otaku so try not bother me when I am not busy (unless...)

我是浙江大学浙江大学生物信息学专业的博士生。研究兴趣为:通过生物信息学的手段,开发相关的程式/算法解决多组学分析的问题。我喜欢探索生物信息学领域的未知事物,也喜欢平面设计和构建好看的网站。Coding是我专业和业余的爱好。是个现充,所以在我不忙的时候不要打扰我(除非是帅哥美女)。🏸🎾可约。

个人主页: https://beiusxzw.github.io

Lize Wu

Lize Wu is a PhD student majoring in immunology and bioinformatics at Zhejiang University School of Medicine. He obtained the bachelor degree in biomedical science from Zhejiang University. His research interests are developing bioinformatic tools to analyze immunology-related data and revealing immunological mechanism by both dry- and wet-lab approaches. Lize is facinated with travelling and flying.

吴利则,浙江大学医学院免疫学与生物信息学交叉培养博士生,本科毕业于浙江大学并获得生物医学学士学位。利则的研究兴趣是开发生物信息学工具用以挖掘分析免疫学相关数据,以及使用湿实验和干实验的手段研究免疫学机制。生活上,利则十分着迷于旅行以及和飞行有关的事情。

Xinyi Chen

Xinyi Chen is a Master Student of bioinformatics in the ZJE institute at Zhejiang University. She graduated from College of Agriculture and Biotechnology, Zhejiang University. Her research interests are using bioinformatics, molecular and cellular approaches to study the development/diseases of musculoskeletal system. She is a person who loves life and likes traveling and photography in her spare time. Traveling around the world is her biggest dream.

陈心怡,浙江大学爱丁堡大学联合学院生物信息学专业硕士生。本科毕业于浙江大学农业与生物技术学院。研究兴趣为:利用生物信息学、分子生物学和细胞生物学等多学科交叉手段研究间充质干细胞的分化命运调控。她是个热爱生活的人,空闲时间喜欢旅游和摄影,环游世界是她最大的梦想。

Ruonan Tian

Ruonan Tian is a PhD Student of bioinformatics in the ZJE institute at Zhejiang University. She graduated from Huazhong Agricultural University, majoring in bioinformatics. For her, learning or trying something new is an enjoyable thing. Doing research and exploring new research fileds are also what she enjoys . She loves various sports, such as badminton, basketball and so on. Besides, she is a fangirl who changes idols frequently.

田若楠,浙江大学爱丁堡大学联合学院生物信息学专业博士生,本科毕业于华中农业大学信息学院生物信息学专业。对于她来说,尝试新东西是一件很快乐的事情,因此她也喜欢做研究。她喜欢各种运动,比如羽毛球、篮球、跑步等,同时她还是一个换墙头非常频繁的追星女孩,漂亮的小姐姐和小哥哥令她感到愉悦。

个人主页: https://ruonantian.github.io/rolan/

Yiwen Xu

Jiaxin Xu

Zhejian Yu

Yuhui Chen

Yuhui Chen earned her Bachelor's degree in Marine Biology from Hohai University and is currently pursuing a Master's degree in Bioinformatics at the Zhejiang University-University of Edinburgh Institute. With a keen aspiration to make intriguing discoveries, she is fueled by curiosity and a profound passion for the world. Yuhui enjoys reading, painting, watching movies, and attending theatrical performances in her leisure time. Solitude, for her, is a joyful avenue for self-reflection.

陈雨卉,本科毕业于河海大学海洋生物专业,现硕士就读于浙江大学爱丁堡大学联合学院生物信息学专业。她对世界充满好奇和热爱,希望能找到一些有趣的发现,业余时间喜欢读书绘画,也喜欢电影和戏剧,对她来说,独处是一种非常快乐的自我交流方式。

Weikai Shi

Weikai Shi is a Master Student of biology in the ZJE institute at Zhejiang University. He graduated from Harbin Institute of Technology with a bachelor degree in biotechnology. His recent research is focus on revealing human embryonic stem cells heterogeneity. He has broad interests, especially basketball, table tennis and some other ball games. Also, he loves lovely cats and dogs.

石玮凯,浙江大学爱丁堡大学联合学院生物学硕士生。本科毕业于哈尔滨工业大学生命科学与技术学院。他当前的研究方向是:利用谱系追踪技术揭示人类胚胎干细胞的异质性。他兴趣爱好广泛,喜欢篮球、乒乓球等各种球类运动;也喜欢可爱的喵星人和汪星人。

Linnan Guo

Guo Linnan is a master student in pharmaceutical engineering from the College of Engineering, Zhejiang University. She has a bachelor's degree in information management and information systems from China Pharmaceutical University. She hopes to help others by improving her profession. Besides work and study, she enjoys reading, sports and comedy. Spending time with family and friends and tasting various foods also make her feel happy.

国林楠,浙江大学工程师学院制药工程专业硕士研究生,本科毕业于中国药科大学信息管理与信息系统专业。她希望能够通过精进专业从而帮助他人。工作学习之余,她喜欢阅读、运动和喜剧,与亲友相处以及品尝各种美食也令她觉得人间值得。

Jiongxin Wang

Jiongxin Wang is a PhD Student of bioinformatics in the ZJE institute at Zhejiang University. He graduated from Hohai University with a bachelor's degree and a master's degree in management and information systems from the University of Manchester. His research interests include: the application of deep learning on multi-omics data and algorithm development. As for hobbies, Jiongxin is interested in various sports and coffee.

王炅鑫,浙江大学爱丁堡大学联合学院生物信息学专业博士生,本科毕业于河海大学,硕士毕业于曼彻斯特大学管理与信息系统专业。研究兴趣为:深度学习在多组学数据上的应用。生活中,他热爱各类体育运动和咖啡。

Ziyang Li

Li Ziyang is a joint Ph.D. student in Bioinformatics at the ZJE institute of Zhejiang University and Clinical Medicine at Zhejiang University. He graduated from Shandong University with a master's degree in Clinical Medicine. He has a cheerful personality and enjoys various sports activities such as basketball, swimming, and table tennis. Beyond the confines of academia and athletics, he passionately embraces the rhythmic pedals of cycling and the culinary delights of gastronomy.

李子阳,浙江大学爱丁堡大学联合学院生物信息学与浙江大学临床医学联合培养博士生,研究生毕业于山东大学临床医学专业。他性格开朗,喜欢篮球、游泳、乒乓球等各类体育活动。同时,他也热衷于骑行和美食,美丽的风景和可口的食物是最吸引他的事物。

xirui Huang

Yin Xirui is a Ph.D. student majoring in Biochemistry and Molecular Biology at ZJE. She received her bachelor's degree in Food Science and Engineering from Northeast Agricultural University and her master's degree in pharmacy from Jilin University. Her current research interests are T cell receptors. She is an optimistic person about life, loves to explore different fields, and likes to watch movies and travel to different cities.

殷夕芮,浙江大学爱丁堡大学联合学院生物化学与分子生物学专业博士生,本科毕业于东北农业大学食品科学与工程专业,硕士毕业于吉林大学药学专业,目前的研究方向为T细胞受体的研究。她是一个对生活积极乐观的人,热爱探索不同的领域,平时喜欢看电影和去不同的城市旅行。

Yutong Huang

Yutong Huang, an undergraduate student majoring in Bioinformatics at the Zhejiang University-University of Edinburgh Institute, plans to pursue a Ph.D. in Biology directly in the future. She enjoys singing, playing the piano, and dancing. Additionally, she likes reading novels and following K-pop in her leisure time.

黄雨彤,浙江大学爱丁堡大学联合学院生物信息学专业本科生,未来选择直接攻读生物学博士。她爱好唱歌、钢琴、舞蹈等,业余时间还喜欢阅读小说和关注kpop。

Bingkang Zhao

Bingkang Zhao, an undergraduate student majoring in Bioinformatics at the Zhejiang University-University of Edinburgh Institute. Currently, his research interests lie in the application of deep learning in biology. Besides work and study, he has a passion for Pokémon and reptiles. In his spare time, he enjoys playing Pokémon Trading Card Game (ptcg).

赵炳康,浙江大学爱丁堡大学联合学院生物信息学专业本科生,目前研究兴趣为深度学习在生物领域的应用,他喜爱宝可梦及爬行类,业余时间喜欢玩宝可梦卡牌。

Luyao Zhang

Luyao Zhang, Master of Biomedicine, Edinburgh United College, Zhejiang University. She graduated from Ningbo Institute of Technology, Zhejiang University with a bachelor's degree, majoring in bioengineering. One year after she graduated from undergraduate course, she worked as an R&D assistant for protein purification. She likes music, visiting shops and discovering new things in life.

张璐瑶,浙江大学爱丁堡联合学院生物医学硕士在读。本科毕业于浙大宁波理工学院,生物工程专业。本科毕业后的一年担任蛋白纯化方向的研发助理。喜欢音乐,喜欢去探店,发现生活中的新鲜事物。期待与大家共同交流,一起解锁更多新知识。

Hongchen Zhu

Hongchen Zhu, graduated from Zhejiang University with a bachelor's degree in Biological Sciences and is currently pursuing Master of Biomedicine, Edinburgh United College, Zhejiang University. He engages in research related to human embryonic stem cells. He enjoy reading and music, as well as watching interesting movies and TV dramas, or engaging in some solitude and contemplation.

朱洪辰,本科毕业于浙江大学,生物科学专业。目前浙江大学爱丁堡联合学院生物医学硕士在读,从事人类胚胎干细胞相关方面的研究。他爱好读书和音乐,也喜欢看一些有趣的电影和电视剧,或者进行一些独处与思考。

Zhouyue Zhu

Zhouyue Zhu, an undergraduate majoring in Bioinformatics at the ZJU-UoE Institute. He always maintains curiosity about novel things and is full of passion for life. He loves photography and enjoys taking his camera out to capture brilliant moments in life.

朱周越,浙江大学爱丁堡大学联合学院生物信息学本科生。他永远对新奇的事物保持好奇心,对生活充满热爱。他热爱摄影,喜欢带着相机出去走走,喜欢在生活和旅途中记录眼中看到的美好瞬间。

Anni Gao

Anni Gao is an undergraduate student majoring in Biomedical Informatics at Zhejiang University-University of Edinburgh Institute. Currently, she is working on data analysis and processing related to transposons in early embryonic development. She is positive about life and keeps curious about new things. To relax, she likes to sing and listen to music. She also likes to do all kinds of handicrafts to immerse herself in her own time.

高安妮,浙江大学爱丁堡大学联合学院生物信息学专业本科生。目前致力于早期胚胎发育中转座子相关的数据分析处理工作。她积极面对生活,对新鲜事物保持好奇心。生活中,她喜欢唱歌和听音乐放松心情,也喜欢做各种手工沉浸度过属于自己的时间。

Hongan Chen

Hong'an Chen is an undergraduate biomedical student at the ZJU-UoE Institute in Zhejiang University. She has a habit of finding beauty in the quiet and solitude of daily life. In her free time, she enjoys watching musicals, through which she explores new languages and cultures. She sees this as a wonderful way to broaden her horizons.

陈虹安,浙江大学爱丁堡大学联合学院生物医学本科生。她习惯在平静和独处中发现生活的美好。生活中,她爱好观看音乐剧,由此接触新的语言和文化,拓展视野。