Name:Kun QU (瞿昆)
Address:School of Life Science ,University of Science and Technology 

of China (USTC) 443 Huangshang Road, Hefei City, 

Anhui, 230027, P. R. China
1999-2004B.S., Chemical Physics, USTC, China
2004-2010Ph.D., Physical Chemistry, Indiana University, USA
2009-2010Bioinformatics Specialist, City of Hope Cancer Center, USA
2010-2011Bioinformatician, School of Medicine, Stanford University, USA
2012-2014Sr. Bioinformatics Scientist, School of Medicine, Stanford University
2014-2016Director of Bioinformatics, School of Medicine, Stanford University
2016-PreProfessor, School of Life Science, USTC, China
1.Precision medicine & personalized tumor regulome
2.Bioinformatics, computational biology, and development of cloud-based software for big data in life science
3.Transcription factor, lncRNA and epigenetic modification in gene regulation
1.H. Xie*, W. Zhang*, M. Zhang*, T. Akhtar, Y. Li, W. Yi, X. Sun, Z. Zuo, M. Wei, X. Fang, Z. Yao, K. Dong, S. Zhong, Q. Liu, Y. Shen, Q. Wu, X. Wang, H. Zhao, J. Bao, K. Qu#, T. Xue# “Chromatin accessibility analysis reveals regulatory dynamics of developing human retina and hiPSC-derived retinal organoids”. Science Advances (2020).
2.P. Cai*, Auke BC Otten*, B. Cheng, Mitsuhiro A. Ishii, W. Zhang, B. Huang, K. Qu#, Bryan K. Sun# “A genome-wide long noncoding RNA CRISPRi screen identifies PRANCR as a novel regulator of epidermal homeostasis”. Genome Research (2020).
3.Fang J, Ma Q, Chu C, Huang B, Li L, Cai P, Batista PJ, Tolentino KEM, Xu J, Li R, Du P, Qu K, Chang HY: Functional classification of chromatin associated lncRNAs via histone modification specific PIRCh-seq analysis. Genome Biology (2019).
4.Z. Zuo, Y. Jin, W. Zhang, Y. Lu, B. Li & K. Qu “ATAC-pipe: general analysis of genome-wide chromatin accessibility”, Briefings in Bioinformatics, bby056–bby056, 2018.
5.X. Bao, Z. Siprashvili, B. Zarnegar, R. Shenoy, E. Rios, N. Nady, K. Qu, A. Mah, D. Webster, A. Rubin, G. Wozniak, S. Tao, J. Wysocka, P. Khavari “CSNK1a1 regulates PRMT1 to maintain the progenitor state in self-renewing somatic tissue”, Developmental Cell, 47, 227–239, 2017.
6.W. Pan, S. Zhu, K. Qu, K. Meeth, J. Cheng, K. He, H. Ma, Y. Liao, X. Wen, C. Roden, Z. Tobiasova, Z. Wei, J. Zhao, J. Liu, J. Zheng, B. Guo, S. Khan, M. Bosenberg, R. Flavell, J. Lu “The DNA methylcytosine dioxygenase Tet2 sustains immunosuppressive function of tumor-infiltrating myeloid cells to promote melanoma progression”, Immunity, 47, 284–297, 2017.
7.K. Qu*, L. Zaba, A. Satpathy, P. Giresi, R. Li, Y. Jin, R. Armstrong, C. Jin, N. Schmitt, Z. Rahbar, H. Ueno, W. Greenleaf, Y. Kim, H. Chang “Chromatin accessibility landscape of cutaneous T cell lymphoma and dynamic response to HDAC inhibitors”, Cancer Cell, 32, 1-15, 2017.
8.G. Wu, M. Yuan, S. Shen, X. Ma, J. Fang, L. Zhu, L. Sun, Z. Liu, X. He, D. Huang, T. Li, C. Li, J. Wu, X. Hu, Z. Li, L. Song, K. Qu, H. Zhang & P. Gao “Menin enhances c-Myc-mediated transcription to promote cancer progression” Nature Communications, 8, 15278, 2017.
9.C. Jin , K. Qu “Application of bioinformatics techniques in revealing the mechanisms of epigenetic regulation“  SCIENTIA SINICA Vitae 47(1), 116-124 , 2017.
10.K. Qu*, S. Garamszegi*, F. Wu*, et al, J. Mesirov “Integrative genomic analysis by interoperation of bioinformatics tools in GenomeSpace”, Nature Methods, 13, 245–247, 2016.
11.K. Qu*, L. Zaba*, P. Giresi, et al, H. Chang “Individuality and dynamics of personal regulomes in human T cells”, Cell Systems, 1:51-61, 2015 (Previewed in Cell System).
12.Y. Wan*, K. Qu*, Q. Zhang, R. Flynn, O. Manor, Z. Ouyang, J. Zhang, R. Spitale, M. Snyder, E. Segaland H. Chang “Landscape and variation of RNA secondary structure across the human transcriptome” Nature, 505:706-9, 2014 (Highlighted in Nature News & Views).
13.V. Lopez-Pajares, K. Qu, et al, P. Khavari “A LncRNA-MAF/MAFB Transcription Factor Network Regulates Epidermal Differentiation”, Developmental Cell, 32(6), 693-706, 2015 (Cover Article, Previewed in Developmental Cell).
14.C. Benitez, K. Qu, et al, S. Kim “An Integrated Cell Purification and Genomics Strategy Reveals Multiple Regulators of Pancreas Development”, PLoS Genetics, Oct. 16, 2014.
15.J. Quinn, I. Ilik, K. Qu, P. Georgiev, et al., H. Chang “Revealing long noncoding RNA architecture and functions using domain-specific chromatin isolation by RNA purification”, Nature Biotechnology, 32:933-940, 2014.
16.P. Batista*, B. Molinie*, J. Wang*, K. Qu, et al., H. Chang “m6A RNA Modification Controls Cell Fate Transition in Mammalian Embryonic Stem Cells”, Cell Stem Cell, 15(6), 707-719, 2014.
17.O. Wapinski*, T. Vierbuchen*, K. Qu, et al., H. Chang, and M. Wernig “Hierarchical mechanisms for transcription factor-mediated reprogramming of fibroblasts to neurons” Cell, 155(3), 2013.
18.Y. Wan, K. Qu, Z. Ouyang, and H. Chang“Genome-wide mapping of RNA structure using nuclease digestion and high-throughput sequencing” Nature Protocols, 8(5):849-69, 2013.
19.N. Rapicavoli, K. Qu, et al., H. Chang “A mammalian pseudogene lncRNA at the interface of inflammation and anti-inflammatory therapeutics” eLife, July 23, 2013.
20.X. Bao, J. Tang, V. Lopaz-Pajares, S. Tao, K. Qu, G. Crabtree, P. Khavari “ACTL6a Enforces the Epidermal Progenitor State by Suppressing SWI/SNF-Dependent Induction of KLF4” Cell Stem Cell, 12(2):193-203, 2013.
21.M. Kretz, D. Webster, C. Chu, Z. Siprashvili, A. Zehnder, K. Qu, et al., H. Chang, and P. Khavari “Control of Somatic Tissue Differentiation by the Long Non-Coding RNA TINCR” Nature, 493(7431):231-5, 2013 (Faculty 1000).
22.R. Flockhart, D. Webster, K. Qu, et al., P. Khavari “BRAFV600E remodels the melanocyte transcriptome and induces BANCR to regulate melanoma cell migration” Genome Research, 22(6):1006-14, 2012 (Highlighted in Nature Reviews Cancer).
23.Y. Wan, K. Qu, Z. Ouyang, et al., E. Segal, H. Chang. “Genome-wide measurement of RNA folding energies”Molecular Cell, 48:1-13, 2012 (Faculty 1000).
24.A. Bhaduri, K. Qu, et al., and P. Khavari. “Rapid Identification of Nonhuman Sequencing in High Throughput Sequencing Data Sets” Bioinformatics, 28(8):1174-5, 2012 (Faculty 1000).
25.N. Gomez-Ospina, A. Chang, K. Qu, A. Oro. “Translocation Affecting Sonic Hedgehog Gene associated with Basal Cell Carcinomas” The New England Journal of Medicine, 366:2233-2234, 2012.
26.C. Chu, K. Qu, F. Zhong, S. Artandi, H. Chang. “Genomic maps of lincRNA occupancy reveal principles of RNA-chromatin interactions” Molecular Cell, 44(4), 667-678, 2011 (Cover Article, Highlighted in Nature Reviews Genetics and Nature Methods, Faculty 1000).

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