Professor, Principal Investigator
Laboratory of Regulatory and Systems Genomics
1. Develop computational tools and statistical models for high-throughput omics data analysis and functional analysis of genomic elements.
2. Study gene expression regulation in a number of biological systems including embryonic and adult stem cells, hematopoietic cell linages and tumors.
3. Systems biology and personal genomics.
2013.10 - Present: Professor, Principle Investigator, CAS-MPG Partner Institute for Computational Biology (PICB), Chinese Academy of Sciences;
2010.6 - 2013.9: Research Fellow, Department of Pediatric Oncology, Dana Farber Cancer Institute; Division of Hematology/Oncology, Children’s Hospital Boston; Harvard Medical School;
2009.4 - 2010.5: Research Fellow, Department of Biostatistics and Computational Biology, Dana Farber Cancer Institute and Department of Biostatistics, Harvard School of Public Health;
2003.9 - 2008.12: Ph. D. in Theoretical Biophysics, Institute of Theoretical Physics, Chinese Academy of Sciences, China;
1999.9 - 2003.7: B.S. in Physics, Department of Special Class for Gifted Young, University of Science and Technology of China.
Selected Publications:（*Corresponding Author, # Contributed Equally）
Liu X#, Zhang YN#, Chen Y#, Li MS#, Zhou F#, Li KL, Cao H, Ni M, Liu YX, Gu ZM, Dickerson KE, Xie SQ, Hon GC, Xuan ZY, Zhang MQ, Shao Z, Xu J*. In Situ Capture of Chromatin Interactions by Biotinylated dCas9. Cell, 2017, 170(5), 1028–1043.
Tu SQ and Shao Z*. An introduction to computational tools for differential binding analysis with ChIP-seq data. Quantitative Biology, 2017, 5(3), 226-235.
Liu X#, Zhang YN#, Ni M#, Cao H, Signer RAJ, Li D, Li MS, Gu ZM, Hu ZP, Dickerson KE, Weinberg SE, Chandel NS, DeBerardinis RJ, Zhou F*, Shao Z*, Xu J*. Regulation of Mitochondrial Biogenesis in Erythropoiesis by mTORC1-Mediated Protein Translation. Nature Cell Biology, 2017, 19, 626–638.
Tu SQ, Yuan GC, Shao Z*. The PRC2-binding long non-coding RNAs in human and mouse genomes are associated with predictive sequence features. Scientific Reports 2017, 7, 41669.
Huang J#, Liu X#, Li D#, Shao Z#, Cao H, Zhang YN, Trompouki E, Bowman TV, Zon LI, Yuan GC, Stuart H. Orkin SH*, Xu J*. Dynamic Control of Enhancer Repertoires Drives Lineage and Stage-Specific Transcription during Hematopoiesis. Developmental Cell, 2016, 36, 9-23.
Xu J#, Shao Z#, Li D, Xie H, Kim W, Huang J, Taylor JE, Pinello L, Glass K, Jaffe JD, Yuan GC, Orkin SH*. Developmental control of Polycomb subunit composition by GATA factors mediates a switch to non-canonical functions. Molecular Cell, 2015, 57 (2), 304–316.
Das PP#, Shao Z#, Beyaz S, Apostolou E, O’Brien K, Atsma JM, Ljuboja D, Guo G, Kerenyi M, Woo A, Yuan GC, Onder T, Hochedlinger K, Kim J, Orkin SH*. Distinct and combinatorial functions of Jmjd2b/Kdm4b and cells identity. Molecular Cell, 2014, 53 (1), 32-48.
Baena E, Shao Z#, Linn D#, Glass K, Hamblen M, Fujiwara Y, Kim J, Nguyen M, Zhang X, Godinho F, Bronson RT, Mucci L, Loda M, Yuan GC, Orkin SH* and Li Z*. ETV1 directs androgen metabolism and confers aggressive prostate cancer in targeted mice and patients. Gene & Development, 2013, 27 (6), 683-698.
Xu J#, Shao Z#, Bauer DE, Glass K, Pinello L, Handel B, Hou S, Stamatoyannopoulos J, Mikkola H, Yuan GC* and Orkin SH*. Combinatorial assembly of developmental stage-specific enhancers controls gene expression programs during human erythropoiesis. Developmental Cell, 2012, 23 (4):796-811.
Shao Z#, Zhang Y#, Yuan GC, Orkin SH* and Waxman DJ*. MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets. Genome Biology, 2012, 13 R16.
Liu Y#, Shao Z#, and Yuan GC*. Prediction of Polycomb target genes in mouse embryonic stem cells. Genomics, 2010, 96: 17-26.