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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.

RESEARCH

We Are Exploring

Item 1

Epigenetics BEYOND DNA

Epigenetics study the changes of phenotype without changes in DNA sequence.The prefix epi- means "on top of".

Item 1

Transposable Elements THE 'JUMPING' GENE

For decades, scientists dismissed transposable elements, also known as transposons or “jumping genes”, as useless “junk DNA”. But are they really?

Item 1

Genomics & AI DATA-DRIVEN BIOMEDICINE

Nowadays, artificial intelligence (AI) learn to drive cars, play GO, recognize images, transcribe speech and translate text. What AI is capable in genomics?

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 Lab Manager

M.S., Ophthalmology,Wenzhou Medical University

📧 siqianjin@intl.zju.edu.cn
Junxun Lin

Junxin Lin postdoctoral researcher

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

📧 linjunxin@zju.edu.cn
Yixin Guo

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

B.Eng., Bioinformatics, Southwest JiaoTong University

📧 yixinguo@zju.edu.cn
Dengfeng Ruan

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

Major in Clinical Medicine, Zhejiang University

📧 dfruan@zju.edu.com
Xinyu Xiang

Xinyu Xiang Ph.D. Student

B.S., Applied Bioscience, Zhejiang University

📧 xxyxiangxinyu@163.com
Ziyuan Han

Ziyuan Han Ph.D. Student

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

📧ziyuanh.20@intl.zju.edu.cn
Bing Gao

Bing Gao MASTER STUDENT

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

📧 971223798@qq.com
Ziwei Xue

Ziwei Xue Undergraduate Researcher

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

📧 ziwei.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
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
ALUMNI

Previous Students

Kaiwen Luo

Kaiwen Luo Undergraduate RESEARCHER

Major in Biomedical Sciences, ZJU-UoE INSTITUTE, Zhejiang University

📧 kaiwen.17@intl.zju.edu.cn
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
Ruihong Yuan

Ruihong Yuan Undergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 ruihong.19@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 LiUndergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute,Zhejiang University

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

Lingyuan YeUndergraduate Researcher

Major in Bioinformatics, ZJU-UoE Institute, Zhejiang University

📧 lingyuan.19@intl.zju.edu.cn
PUBLICATIONS

Our Works

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

2020

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.
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.

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.
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.
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
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
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.
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.
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.
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.

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.
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.
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.
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.
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.
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.

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.
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.

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.
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.
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.
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.

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.

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.

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.

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.
BIOINFORMATICS

Web tools

  1. Region Associated DEG START TRYING!

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

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.