office: 2000D Terasaki building
research interests: Integrative genomics and systems biology of common complex diseases
Common cardiometabolic disorders such as coronary artery disease, diabetes, and obesity represent top health concerns worldwide. These diseases are not only highly interconnected but also linked to various other diseases such as cancers and neurodegenerative diseases. We hypothesize that the complex interactions between genetic and environmental risk factors perturb specific gene networks which in turn induce variations in disease susceptibility and therapeutic response. Research in our lab employs integrative genomics and systems biology approaches that leverage multi-omics molecular datasets encompassing genetic, transcriptional, epigenomic, proteomic, gut microbiota, and phenotypic data from human and rodent populations to identify causal molecular networks that contribute to the development of complex diseases. The candidate causal mechanisms unveiled will serve as the basis for therapeutic target identification, biomarker discovery, and precision medicine.
Shu L, Chen KHK, Zhang G, Huan T, Kurt Z, Zhao Y, Codoni V, Tregouet DA, Yang J, Wilson JG, Luo X, Levy D, Lusis AJ, Liu S, Yang X, "Identification of Shared Genetic Regulatory Networks for Cardiovascular Disease and Type 2 Diabetes in Multi-ethnic Populations", PLOS Genetics, 13 (9): e1007040- (2017) [link].
Shu L, Arneson D, Yang X, "Bioinformatics Principles for Deciphering Cardiovascular Diseases", In: Encyclopedia of Cardiovascular Research and Medicine, In press : (2017) .
Axelsson AS, Mahdi T, Nenonen HA, Singh T, Hanzelmann S, Wendt A, Bagge A, Reinbothe TM, Millstein J, Yang X, Zhang B, Gusmao EG, Shu L, Szabat M, Tang Y, Wang J, Salo S, Eliasson L, Artner I, Fex M, Johnson JD, Wollheim CB, Derry JMJ, Mecham B, Spegel P, Mulder H, Gesteira Costa Filho I, Zhang E, Rosengren AH, "Sox5 Regulates Beta-cell Phenotype and Is Reduced in Type 2 Diabetes", Nature Communications, 8 : 15652- (2017) [link].
Arneson D+, Shu L+, Tsai B, Barrere-Cain R, Sun C, Yang X, "Multi-dimensional Integrative Genomics Approaches to Dissecting Cardiovascular Disease", Frontiers in Cardiovascular Medicine, 4 : 8- (2017) [link].
von Scheidt M, Zhao Y, Kurt Z, Pan C, Zeng L, Yang X, Schunkert H, Lusis AJ, "Applications and Limitations of Mouse Models for Understanding Human Atherosclerosis", Cell Metabolism, 25 : 248-261 (2017) [link].
Meng Q, Zhuang Y, Ying Z, Agrawal R, Yang X*, Gomez-Pinilla F*, "Traumatic Brain Injury Induces Genome-wide Transcriptomic, Methylomic, and Network Perturbations in Brain and Blood Predicting Neurological Disorders", EBioMedicine, 16 : 184-194 (2017) [link].
Shu L, Zhao Y, Kurt Z, Byars SG, Tukiainen T, Kettunen J, Orozco, LD, Pellegrini M, Lusis AJ, Ripatti S, Zhang B, Inouye M, Makinen VP, Yang X, "Mergeomics: Integration of Diverse Genomics Resources to Identify Pathogenic Perturbations to Biological Systems", BMC Genomics, 17 : 874- (2016) [link].
Arneson D, Bhattacharya A, Shu L, Makinen VP, Yang X, "Mergeomics: A Web Server for Identifying Pathological Pathways, Networks, and Key Regulators via Multidimensional Data Integration", BMC Genomics, 17 : 722- (2016) [link].
Meng Q, Ying Z, Noble E, Zhao Y, Agrawal R, Mikhail A, Zhuang Y, Tyagi E, Zhang Q, Lee JH, Morselli M, Orozco L, Guo Q, Kilts TM, Zhu J, Zhang B, Pellegrini M, Xiao X, Young MF, Gomez-Pinilla F, Yang X., "Systems Nutrigenomics Reveals Brain Gene Networks Linking Metabolic and Brain Disorders", EBioMedicine, 7 : 157-166 (2016) [link].
Zhao Y, Chen J, Freudenberg JM, Meng Q, CARDIoGRAM Consortium, Rajpal DK, Yang X., "Network-based Identification and Prioritization of Key Regulators of Coronary Artery Disease Loci", Arteriosclerosis, Thrombosis, and Vascular Biology, 36 : 928-941 (2016) [link].