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**#: First author**\
**✝: corresponding author**

1. Yihui Wang#, Yue Liang#, Daosheng Ai, ***Jun-Liszt Li*** ¶, Ziyan Feng, Zhibao Guo, Xing-jun Chen, Tingting Zhang, Xiaoxiao Zou, Jun-Li Gao, Xiaofei Gao, Xiao-Ling Hu, Long-Jun Wu, Wenzhi Sun, Suiqiang Zhu, Shumin Duan, Wei Wang✝, Woo-ping Ge✝ (02/11/2023) ADAM10 mediates macroglial cell fate decisions in the developing brain **BioRxiv** [[DOI Link](https://doi.org/10.1101/2023.02.11.527059)]

1. Lian Liu#, Linzhi Zou#, Kuan Li#, Hanqing Hou, Qun Hu, Shuang Liu, Jie Li, Chenmeng Song, Jiaofeng Chen, Shufeng Wang, Yangzhen Wang, Changri Li, Haibo Du, **Jun-Liszt Li**, Fangyi Chen, Zhigang Xu, Wenzhi Sun, Qianwen Sun, Wei Xiong✝ (2022) Template-independent genome editing in the Pcdh15av−3j mouse, a model of human DFNB23 nonsyndromic deafness. **Cell Reports** [[DOI Link](https://doi.org/10.1016/j.celrep.2022.111061)]
2. Lian Liu#, Linzhi Zou#, Kuan Li#, Hanqing Hou, Qun Hu, Shuang Liu, Jie Li, Chenmeng Song, Jiaofeng Chen, Shufeng Wang, Yangzhen Wang, Changri Li, Haibo Du, ***Jun-Liszt Li*** ¶, Fangyi Chen, Zhigang Xu, Wenzhi Sun, Qianwen Sun, Wei Xiong✝ (2022) Template-independent genome editing in the Pcdh15av−3j mouse, a model of human DFNB23 nonsyndromic deafness. **Cell Reports** [[DOI Link](https://doi.org/10.1016/j.celrep.2022.111061)]

2. Samuel Lundt#, Nannan Zhang#, **Jun-Liszt Li**, Zhe Zhang, Xiaowan Wang, Ruisi Bao, Feng Cai, Wenzhi Sun, Woo-Ping Ge, Shinghua Ding✝ (2021) NAMPT deletion in project neurons induces bioenergetic stress and activates cell death and inflammatory pathways: **Journal of Cerebral Blood Flow & Metabolism** [[PDF](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EeMdie0AmzVFtF0Ibrj84w8BfCFt-J6ysC9ZgNv4z_yzIA?e=cgKWnC) | [DOI Link](https://doi.org/10.1177%2F0271678X21992625)] _**Second author**_
3. Samuel Lundt#, Nannan Zhang#, ***Jun-Liszt Li*** ¶, Zhe Zhang, Xiaowan Wang, Ruisi Bao, Feng Cai, Wenzhi Sun, Woo-Ping Ge, Shinghua Ding✝ (2021) NAMPT deletion in project neurons induces bioenergetic stress and activates cell death and inflammatory pathways: **Journal of Cerebral Blood Flow & Metabolism** [[PDF](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EeMdie0AmzVFtF0Ibrj84w8BfCFt-J6ysC9ZgNv4z_yzIA?e=cgKWnC) | [DOI Link](https://doi.org/10.1177%2F0271678X21992625)] _**Second author**_

3. Huanhuan Pang#, **Jun-Liszt Li#**, Xiaoling Hu, Fei Chen, Xiaofei Gao, Lauren Zacharias, Ralph Deberardinis, Wenzhi Sun✝, Zeping Hu✝, Woo-Ping Ge✝ (12/28/2020) Precision mapping of the mouse brain metabolome. **BioRxiv** [[PDF](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EU-xBTRDra9Nq5ii6XGPA1sBb5L2IG1T4OkFt5M27uIAFQ?e=Znk6ct) | [Shiny app](https://leoj.shinyapps.io/BSMAv1_updated/) | [Link](https://www.biorxiv.org/content/10.1101/2020.12.28.424544v1.full)] _**Co-first author**_
4. Huanhuan Pang#, **Jun-Liszt Li#**, Xiaoling Hu, Fei Chen, Xiaofei Gao, Lauren Zacharias, Ralph Deberardinis, Wenzhi Sun✝, Zeping Hu✝, Woo-Ping Ge✝ (12/28/2020) Precision mapping of the mouse brain metabolome. **BioRxiv** [[PDF](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EU-xBTRDra9Nq5ii6XGPA1sBb5L2IG1T4OkFt5M27uIAFQ?e=Znk6ct) | [Shiny app](https://leoj.shinyapps.io/BSMAv1_updated/) | [DOI Link](https://doi.org/10.1101/2020.12.28.424544)] _**Co-first author**_

4. Lian Liu#, Kuan Li#, Linzhi Zou, Hanqing Hou, Qun Hu, Shuang Liu, Shufeng Wang, Yangzhen Wang, Jie Li, Chenmeng Song, Jiaofeng Chen, Changri Li, Haibo Du, **Jun-Liszt Li**, Fangyi Chen, Zhigang Xu, Wenzhi Sun, Qianwen Sun✝, Wei Xiong✝ (2020) Template-independent genome editing and repairing correct frameshift disease in vivo​. **BioRxiv** [[Link](https://www.biorxiv.org/content/10.1101/2020.11.13.381160v1.abstract)]
5. Lian Liu#, Kuan Li#, Linzhi Zou, Hanqing Hou, Qun Hu, Shuang Liu, Shufeng Wang, Yangzhen Wang, Jie Li, Chenmeng Song, Jiaofeng Chen, Changri Li, Haibo Du, ***Jun-Liszt Li*** ¶, Fangyi Chen, Zhigang Xu, Wenzhi Sun, Qianwen Sun✝, Wei Xiong✝ (2020) Template-independent genome editing and repairing correct frameshift disease in vivo​. **BioRxiv** [[DOI Link](https://doi.org/10.1101/2020.11.13.381160)]

5. Gao X#, **Li JL**, Chen X, Ci B, Chen F, Lu N, Shen B, Zheng L, Jia J, Yi Y, Zhang S, Shi Y, Shi K, Propson NE, Huang Y, Poinsatte K, Zhang Z, Yue Y, Bosco DB, Lu YM, Yang SB, Adams RF, Lindner V, Huang F, Wu LJ, Zheng H, Han F, Hippenmeyer S, Stowe AM, Peng B, Margeta M, Wang X, Liu Q, Korbelin J, Trepel M, Lu H, Zhou BO, Zhao H, Sun W, Bachoo RM, Ge WP✝ (9/15/2020) Reduction of neuronal activity mediated by blood-vessel regression in the brain. **BioRxiv** [[PDF](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/Ea0s6AgGlzBDoblX9nWAbdwBi4bpGu9EKgGhQD86-8ellQ?e=cvfbuL) | [Link](https://www.biorxiv.org/content/10.1101/2020.09.15.262782v1)] _**Second author**_
6. Gao X#, ***Li JL*** ¶, Chen X, Ci B, Chen F, Lu N, Shen B, Zheng L, Jia J, Yi Y, Zhang S, Shi Y, Shi K, Propson NE, Huang Y, Poinsatte K, Zhang Z, Yue Y, Bosco DB, Lu YM, Yang SB, Adams RF, Lindner V, Huang F, Wu LJ, Zheng H, Han F, Hippenmeyer S, Stowe AM, Peng B, Margeta M, Wang X, Liu Q, Korbelin J, Trepel M, Lu H, Zhou BO, Zhao H, Sun W, Bachoo RM, Ge WP✝ (9/15/2020) Reduction of neuronal activity mediated by blood-vessel regression in the brain. **BioRxiv** [[PDF](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/Ea0s6AgGlzBDoblX9nWAbdwBi4bpGu9EKgGhQD86-8ellQ?e=cvfbuL) | [DOI Link](https://doi.org/10.1101/2020.09.15.262782)] _**Second author**_

6. Wentong Hong# , Zhonggan Ren# , Pifang Gong# , **Jun-Liszt Li**. Wenzhi Sun, Woo-Ping Ge, Chun-Li Zhang, Shumin Duan, Song Qin✝ (2020) Temporal-spatial generation of astrocytes in the developing diencephalon; **J. Neurosci**, under review; _**Second author**_
7. Wentong Hong# , Zhonggan Ren# , Pifang Gong# , ***Jun-Liszt Li*** ¶, Wenzhi Sun, Woo-Ping Ge, Chun-Li Zhang, Shumin Duan, Song Qin✝ (2020) Temporal-spatial generation of astrocytes in the developing diencephalon; **J. Neurosci**, under review; _**Second author**_

7. Beal J, Haddock-Angelli T, Gershater M, de Mora K, Lizarazo M, Hollenhorst J, Randy Rettberg✝,**iGEM interlab Study Contributors** (2016) Reproducibility of Fluorescent Expression from Engineered Biological Constructs in E. coli. PLoS 7NE 11(3): e0150182. doiV10.13•1vjournal.pone.0150182 2015 iGEM Interlab Study Contributors: HZAU-China: Pan Chu, **Jun Li(Jun-Liszt Li)**, Keji Yan [[PDF](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EVM1XjiQzAJOj8TVxIzUkE4BJvN91iF9-FyCBOcOmA4pHw?e=5UQ2De) | [DOI Link](https://doi.org/10.1371/journal.pone.0150182)]
8. Beal J, Haddock-Angelli T, Gershater M, de Mora K, Lizarazo M, Hollenhorst J, Randy Rettberg✝,**iGEM interlab Study Contributors** (2016) Reproducibility of Fluorescent Expression from Engineered Biological Constructs in E. coli. PLoS 7NE 11(3): e0150182. doiV10.13•1vjournal.pone.0150182 2015 iGEM Interlab Study Contributors: HZAU-China: Pan Chu, ***Jun Li(Jun-Liszt Li)***, Keji Yan [[PDF](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EVM1XjiQzAJOj8TVxIzUkE4BJvN91iF9-FyCBOcOmA4pHw?e=5UQ2De) | [DOI Link](https://doi.org/10.1371/journal.pone.0150182)]


# Academic Publications

1. **Jun-Liszt Li** (12/2020) The study of DUSP14 phosphatase underlying sleep need regulation; CIBR; AAIS, Peking University (PhD qualification, research proposal)

2. **Jun-Liszt Li** (06/2018) A cell lethality Reporter(CLR) based system for orphan GPCRs high throughput screening (HTS) and development of novel kinase activity Reporter system; HZAU (Bachelor Thesis)


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**Leica**: [Leica-SP8](https://www.leica-microsystems.com/products/confocal-microscopes/p/leica-tcs-sp8/) (Archived Product Replaced by [STELLARIS 5 & STELLARIS 8](https://www.leica-microsystems.com/products/confocal-microscopes/p/stellaris-8/))\
**Carl Zeiss**: [LSM 880, with Airyscan](): The Zeiss LSM880 with Ariyscan 2 is an inverted confocal microscope. The system is equipped with 7 laser lines 405nm, 458nm, 488nm, 514 nm, 561nm, 594nm and 633 nm. The newly designed excitation beam is elongated in y which acquires four lines of image information instead of only one with just one horizontal scanner movement. [[Standard Operation Protocol](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/ES8YWy6g61VJpaYUmIcrrG4Bq9dhrJ25WxYgI4cMiapkXQ?e=dLf0sO) | [Detailed Configuration](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EfIoB6QWG2xBglZICiWEwR0BYDtYKGV1VDXC8iwCIuNMeQ?e=duyppQ)]


#### Information about Microscope Objectives
- Please refer to the following inventory for all of the objectives available at the [Janelia imaging core facility](https://www.janelia.org/support-team/light-microscopy/resources). [[Inventory list](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EX0KqlaSJAhHhH-vXt23DrQBmQ-MBuEJ_ELtydJhkT-9VA?e=JJdRZq) | [Zeiss confocal objectives](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EWUOJGSGpkdKgNuo0bpumCcB-o_zM3hhNK39CEPT-Fc_3A?e=kAh7z0)]
- Manufacturer brochures for objective types can also be viewed: [Zeiss Objectives](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EWtf_iuyHhFPvd8YoaBEJO8BLWgJ5C_Fqbl1vakkVVi2ag?e=BKLcaB), [Nikon Objectives](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EVhT7WvjQLRMsDdFnJ7Je9wBwNQtOV1XTq7fxCTMJ59MVA?e=NnomWS), and [Olympus Objectives](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EbWytDbHvWVBnvz9W484lvUB8eWBxy98abCpNoJtETaJOA?e=NYHfoF).


#### SpectraViewers
- [Fluorescence SpectraViewer](https://www.thermofisher.cn/order/fluorescence-spectraviewer#!/), ThermoFisher [[Manual](https://www.thermofisher.cn/cn/en/home/life-science/cell-analysis/fluorophores/guide-fluorescence-spectraviewer.html)]
- [SearchLight](https://searchlight.semrock.com/), Semrock [[Manual](https://searchlight.semrock.com/Help.aspx)]
- [Fluorescence Spectrum Viewer](https://www.bdbiosciences.com/en-us/resources/bd-spectrum-viewer), BD Biosciences: The BD Spectrum Viewer is a tool that depicts the excitation and emission curves of fluorochromes common to flow cytometry. This tool can be used to determine appropriate filters to detect a fluorochrome as well as fluorochrome compatibility and fluorescent spillover.


#### Staining
- [Fluorescence Dye and Filter Database](https://www.micro-shop.zeiss.com/en/us/shop/filterAssistant/dyes/), Zeiss
- [Cell Staining Simulation Tool](https://www.thermofisher.cn/cn/en/home/life-science/lab-data-management-analysis-software/lab-apps/cell-staining-tool.html?adobe_mc=MCMID%7C32915283128660043822078872448289181953%7CMCAID%3D318B7E039CF16E3C-60001D2314A987EE%7CMCORGID%3D5B135A0C5370E6B40A490D44%40AdobeOrg%7CTS=1614293705), Life Technologies


---
# Two-Photon Microscopy
![2pobjective25x](/img/IMG_20191125_015442_edited.jpg)
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---


# Light-sheet Microscopy
![lightsheet001](/img/536fbb_e905706e774b47b19e8802138342a844_mv2.webp)\
![tlsm002](/img/Dingtalk_20220903141016.jpg)
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Thomas Reese studies synaptic structure and function using advanced light and electron microscopy techniques. John Heuser developed and spent his career using quick-freeze, deep-etch electron microscopy to study all aspects of cell biology.\
- **Imaging Synaptic Vesicle Transmission**: Two pioneering electron microscopists, John Heuser and Tom Reese, reminisce about their early attempts to image synaptic vesicle transmission. (**iBiology interview**, recorded in July 2015: [[Part 1: Imaging synaptic vesicle transmission](https://pkueducn-my.sharepoint.com/:v:/g/personal/lijun0705_pku_edu_cn/EQITWJRLtSFKg5tqfCGYYC0BWzaz7CQK-HwYTtVZLXM9QA?e=I3wBVq) | [Part 2: The Future of Electron Microscopy](https://pkueducn-my.sharepoint.com/:v:/g/personal/lijun0705_pku_edu_cn/EVsGt6E9HN5Cuvfk9zGInF0BCLrcb1P8cZMgwN9UZDU_Xw?e=bm14gg) | [Part 3: Why Collaborate?](https://pkueducn-my.sharepoint.com/:v:/g/personal/lijun0705_pku_edu_cn/ES-O26Hl429Ilc5a9L6KqAUB7F86M2nlDTxsq1KlX6qNqw?e=OcweNL) | [Source](https://www.ibiology.org/neuroscience/imaging-synaptic-vesicle-transmission/#part-1)])

=======
**Ref labs**: [Thomas Reese Lab, National Institutes of Health]()\
[John Heuser Lab, Washington University in St. Louis]()\
>>>>>>> Stashed changes



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3. Cellfinder: https://github.com/SainsburyWellcomeCentre/cellfinder
4. BrainRender: https://github.com/BrancoLab/BrainRender
5. Allen Developing Brain atlas: https://developingmouse.brain-map.org/static/atlas

6. NeuronStudio: A free platform that provides tools for 2D/3D visualization as well as manual and automatic detection/tracing of dendritic structures. [Link](http://research.mssm.edu/cnic/tools-ns.html)
7. yEd: A free, open-source, cross-platform graph editor used to quickly and effectively generate high-quality diagrams.


---
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- Goldstein, Joseph L., and Michael S. Brown. “A Century of Cholesterol and Coronaries: From Plaques to Genes and Statins.” Cell 161, no. 1 (2015): 161–72. [[PDF](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EVmM9yqeT0lPuIKaqQlzvkwB0cx7RREjxtfaEAEvtxji5A?e=gxGANA) | [PMID: 25815993](https://pubmed.ncbi.nlm.nih.gov/25815993/) | [DOI Link](https://doi.org/10.1016/j.cell.2015.01.036)]


3. **Mitochondria role in Energy metabolism**
3. **Regulation of Energy metabolism**
- Review in 1979: [METABOLITE TRANSPORT IN MITOCHONDRIA](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EeWcvgdnEsJHqnu77uAAWGoBq6d7dUWpyr1Kromjrev6Rg?e=ylv6xV)
- internal energy stress sensing and response program in brain ?


4. **Lysosome role in metabolic signalling**
- Review in 2019: **The lysosome as a cellular centre for signalling, metabolism and quality control** (Rosalie and Roberto, 2019) [[PDF](https://pkueducn-my.sharepoint.com/:b:/g/personal/lijun0705_pku_edu_cn/EcboMO4gKndOlJOzXWV8ohEBy6mrjgr8mpQGztgPqgYttw?e=yOvXBj) | [PMID: 30602725](https://pubmed.ncbi.nlm.nih.gov/30602725/) | [DOI Link](https://doi.org/10.1038/s41556-018-0244-7)]
Expand Down Expand Up @@ -66,6 +68,7 @@ Sensors for the mTORC1 Pathway** (Wolfson and Sabatini, 2017) [[PDF](https://pku
- How amino acids were sensed? More amino acid sensors?
- How different or similar the amino acid and nutrient inputs are that drive mTORC1/TORC1 signaling in diverse organisms?
- Is GATOR2 the nutrient sensing hub complex ? How does it work to integrate multiple nutrient inputs?
- How does brain sense the stress of energy supply and initiate its response program?


---
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- **Activity dependent**: c-Fos

- **ERK pathway activation**: pKrox24 [[PMID: 28199182](https://pubmed.ncbi.nlm.nih.gov/28199182/) | [DOI Link](https://doi.org/10.7554/elife.21536)]
- **ERK pathway activation**:
- pKrox24 [[PMID: 28199182](https://pubmed.ncbi.nlm.nih.gov/28199182/) | [DOI Link](https://doi.org/10.7554/elife.21536)]
- ERK-KTR: Kinase translocation reporters(KTRs) enable multiplexed measurements of the dynamics of kinase activity at a single-cell level. [[PMID: 29266096](https://pubmed.ncbi.nlm.nih.gov/29266096/) | [DOI Link](https://doi.org/10.1038/nprot.2017.128)]




Expand Down Expand Up @@ -163,6 +166,12 @@ fuoresces in mammalian cells and tissues. miRFP718nano has maximal emission at 7
- dLight[[dLight1.2](https://doi.org/10.1126/science.aat4422), [addgene](https://www.addgene.org/111068/)]
- **Histamine**:
- **eCB**:

**| Engineered neuropeptide sensors**
- **Oxytocin (OT)**:
- GRAB-OT[[GRAB-OT1.0](https://doi.org/10.1038/s41587-022-01561-2)]


- **Glucose**:
- iGlucoSnFR: A genetically encoded single-wavelength sensor for imaging cytosolic glucose [[PMID: 34161775](https://pubmed.ncbi.nlm.nih.gov/34161775/) | [DOI Link](https://doi.org/10.1016/j.celrep.2021.109284)]
- **ATP**:
Expand Down Expand Up @@ -225,11 +234,19 @@ fuoresces in mammalian cells and tissues. miRFP718nano has maximal emission at 7
---

### DNA target Cas9 based
- **Knock out**: SpCas9, SaCas9
- DNA base editor: dCas9-xxx
- Transcriptional activator:
> Because of the simplicity with which gRNAs may be designed and the capacity to change practically any genomic locus, CRISPR is a powerful tool for genetic screening investigations.
---

- Cas9 based whole-genome scale pool screen
- **Knock out**: SpCas9, SaCas9
- **DNA base editor**: dCas9-xxx
- **Transcriptional activator**: dCas9-Suntag system

- **Cas9 based whole-genome scale pool screen**
- **CRISPR Pooled Libraries**: Pooled CRISPR libraries are made up of hundreds of plasmids, each holding several gRNAs for each target gene. Target cells are treated with the pooled library in a CRISPR screening experiment to generate a population of mutant cells, which are then screened for a phenotypic of interest. Experiments with a pooled CRISPR library are significantly more complicated than utilizing CRISPR to change a single genetic region. [[Addgene Link](https://www.addgene.org/crispr/libraries/)]
- Human Activity-Optimized CRISPR Knockout Library (3 sub-libraries in lentiCRISPRv1) [[Addgene:#1000000100](https://www.addgene.org/pooled-library/sabatini-crispr-human-high-activity-3-sublibraries/) | [DOI Link](https://doi.org/10.1126/science.aac7041) | [PMID: 26472758](https://pubmed.ncbi.nlm.nih.gov/26472758/) | Sabatini/Lander lab]
- Human CRISPR Knockout Pooled Library (GeCKO v2) [Addgene:#1000000048,#1000000049]()
- Human CRISPR Metabolic Gene Knockout Library [[Addgene:#110066](https://www.addgene.org/pooled-library/sabatini-human-crispr-metabolic-knockout/) | [DOI Link](https://doi.org/10.1016/j.cell.2015.07.016) | [PMID: 26232224](https://pubmed.ncbi.nlm.nih.gov/26232224/) | Sabatini lab]
- Drosophila Cell CRISPR Knockout Library [[Addgene:#134582,#134583,#134584](https://www.addgene.org/pooled-library/perrimon-drosophila-crispr-knockout/) | [DOI Link](https://doi.org/10.7554/elife.36333) | [PMID: 30051818](https://pubmed.ncbi.nlm.nih.gov/30051818/) | Norbert Perrimon lab]


### RNA target Cas13 based
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