Charles R. Farber

Education

  • BS, Western Kentucky University
  • MS, Michigan State University
  • PhD, University of California, Davis
  • Postdoc, University of California, Los Angeles

Primary Appointment

  • Associate Professor, Public Health Sciences

Contact

Research Interest(s)

Systems Genetics of Skeletal Development and Maintenance

Research Description

Genetics of complex disease Common diseases, such as osteoporosis, impart significant societal health burdens. These diseases are, in part, regulated by genetic determinants and understanding their genetic basis is critical to the development of effective therapeutics. In recent years, technological advances, such as sequencing the genomes of multiple species and the ability to perform bioassays in a massively parallel fashion, have made it possible to begin to understand disease in a systems context. Systems-biology attempts to determine the direct and interactive roles of all cellular and physiological components (transcripts, proteins, metabolites, etc.) in diseased and normal states using data from high-throughput genomic studies.

Our lab is using systems approaches to investigate the molecular basis of bone strength. The goal of this work is to combine genetics and global gene expression profiling in the mouse to identify genes and pathways which influence bone strength related traits using techniques such as causality modeling between expression and physiological traits and generating disease focused gene co-expression networks. An additional component of this work is testing hypotheses generated by systems-analyses using in vitro cell based assays and transgenic mouse models.

Selected Publications

  • Ganta V, Choi M, Kutateladze A, Fox T, Farber C, Annex B. A MicroRNA93-Interferon Regulatory Factor-9-Immunoresponsive Gene-1-Itaconic Acid Pathway Modulates M2-Like Macrophage Polarization to Revascularize Ischemic Muscle. Circulation. 2017;135(24): 2403-2425. PMID: 28356443 | PMCID: PMC5503157
  • Sabik O, Medrano J, Farber C. Genetic Dissection of a QTL Affecting Bone Geometry. G3 (Bethesda, Md.). 2017;7(3): 865-870. PMID: 28082324 | PMCID: PMC5345717
  • Calabrese G, Mesner L, Foley P, Rosen C, Farber C. Network Analysis Implicates Alpha-Synuclein (Snca) in the Regulation of Ovariectomy-Induced Bone Loss. Scientific reports. 2016;6 29475. PMID: 27378017 | PMCID: PMC4932518
  • Calabrese G, Mesner L, Stains J, Tommasini S, Horowitz M, Rosen C, Farber C. Integrating GWAS and Co-expression Network Data Identifies Bone Mineral Density Genes SPTBN1 and MARK3 and an Osteoblast Functional Module. Cell systems. 2016;4(1): 46-59.e4. PMID: 27866947 | PMCID: PMC5269473
  • Gillespie A, Teoh J, Lee H, Prince J, Stadnisky M, Anderson M, Nash W, Rival C, Wei H, Gamache A, Farber C, Tung K, Brown M. Genomic Modifiers of Natural Killer Cells, Immune Responsiveness and Lymphoid Tissue Remodeling Together Increase Host Resistance to Viral Infection. PLoS pathogens. 2016;12(2): e1005419. PMID: 26845690 | PMCID: PMC4742223
  • Li C, Zhen G, Chai Y, Xie L, Crane J, Farber E, Farber C, Luo X, Gao P, Cao X, Wan M. RhoA determines lineage fate of mesenchymal stem cells by modulating CTGF-VEGF complex in extracellular matrix. Nature communications. 2016;7 11455. PMID: 27126736 | PMCID: PMC4855537
  • Lusis A, Seldin M, Allayee H, Bennett B, Civelek M, Davis R, Eskin E, Farber C, Hui S, Mehrabian M, Norheim F, Pan C, Parks B, Rau C, Smith D, Vallim T, Wang Y, Wang J. The Hybrid Mouse Diversity Panel: a resource for systems genetics analyses of metabolic and cardiovascular traits. Journal of lipid research. 2016;57(6): 925-42. PMID: 27099397 | PMCID: PMC4878195
  • Pisarska M, Akhlaghpour M, Lee B, Barlow G, Xu N, Wang E, Mackey A, Farber C, Rich S, Rotter J, Chen Y, Goodarzi M, Guller S, Williams J. Optimization of techniques for multiple platform testing in small, precious samples such as human chorionic villus sampling. Prenatal diagnosis. 2016;36(11): 1061-1070. PMID: 27718505 | PMCID: PMC5142835
  • Sabik O, Farber C. Using GWAS to identify novel therapeutic targets for osteoporosis. Translational research : the journal of laboratory and clinical medicine. 2016;181 15-26. PMID: 27837649 | PMCID: PMC5357198
  • Dokun A, Chen L, Okutsu M, Farber C, Hazarika S, Jones W, Craig D, Marchuk D, Lye R, Shah S, Annex B. ADAM12: a genetic modifier of preclinical peripheral arterial disease. American journal of physiology. Heart and circulatory physiology. 2015;309(5): H790-803. PMID: 26163448 | PMCID: PMC4591412
  • Frey J, Li Z, Ellis J, Zhang Q, Farber C, Aja S, Wolfgang M, Clemens T, Riddle R. Wnt-Lrp5 signaling regulates fatty acid metabolism in the osteoblast. Molecular and cellular biology. 2015;35(11): 1979-91. PMID: 25802278 | PMCID: PMC4420919
  • Orozco L, Morselli M, Rubbi L, Guo W, Go J, Shi H, Lopez D, Furlotte N, Bennett B, Farber C, Ghazalpour A, Zhang M, Bahous R, Rozen R, Lusis A, Pellegrini M. Epigenome-wide association of liver methylation patterns and complex metabolic traits in mice. Cell metabolism. 2015;21(6): 905-17. PMID: 26039453 | PMCID: PMC4454894
  • Zheng H, Forgetta V, Hsu Y, Estrada K, Rosello-Diez A, Leo P, Dahia C, Park-Min K, Tobias J, Kooperberg C, Kleinman A, Styrkarsdottir U, Liu C, Uggla C, Evans D, Nielson C, Walter K, Pettersson-Kymmer U, McCarthy S, Eriksson J, Kwan T, Jhamai M, Trajanoska K, Memari Y, Min J, Huang J, Danecek P, Wilmot B, Li R, Chou W, Mokry L, Moayyeri A, Claussnitzer M, Cheng C, Cheung W, Medina-Gómez C, Ge B, Chen S, Choi K, Oei L, Fraser J, Kraaij R, Hibbs M, Gregson C, Paquette D, Hofman A, Wibom C, Tranah G, Marshall M, Gardiner B, Cremin K, Auer P, Hsu L, Ring S, Tung J, Thorleifsson G, Enneman A, van Schoor N, de Groot L, van der Velde N, Melin B, Kemp J, Christiansen C, Sayers A, Zhou Y, Calderari S, van Rooij J, Carlson C, Peters U, Berlivet S, Dostie J, Uitterlinden A, Williams S, Farber C, Grinberg D, LaCroix A, Haessler J, Chasman D, Giulianini F, Rose L, Ridker P, Eisman J, Nguyen T, Center J, Nogues X, Garcia-Giralt N, Launer L, Gudnason V, Mellström D, Vandenput L, Amin N, van Duijn C, Karlsson M, Ljunggren Ö, Svensson O, Hallmans G, Rousseau F, Giroux S, Bussière J, Arp P, Koromani F, Prince R, Lewis J, Langdahl B, Hermann A, Jensen J, Kaptoge S, Khaw K, Reeve J, Formosa M, Xuereb-Anastasi A, Åkesson K, McGuigan F, Garg G, Olmos J, Zarrabeitia M, Riancho J, Ralston S, Alonso N, Jiang X, Goltzman D, Pastinen T, Grundberg E, Gauguier D, Orwoll E, Karasik D, Davey-Smith G, Smith A, Siggeirsdottir K, Harris T, Zillikens M, van Meurs J, Thorsteinsdottir U, Maurano M, Timpson N, Soranzo N, Durbin R, Wilson S, Ntzani E, Brown M, Stefansson K, Hinds D, Spector T, Cupples L, Ohlsson C, Greenwood C, Jackson R, Rowe D, Loomis C, Evans D, Ackert-Bicknell C, Joyner A, Duncan E, Kiel D, Rivadeneira F, Richards J. Whole-genome sequencing identifies EN1 as a determinant of bone density and fracture. Nature. 2015;526(7571): 112-7. PMID: 26367794 | PMCID: PMC4755714
  • Farber C, Reich A, Barnes A, Becerra P, Rauch F, Cabral W, Bae A, Quinlan A, Glorieux F, Clemens T, Marini J. A Novel IFITM5 Mutation in Severe Atypical Osteogenesis Imperfecta Type VI Impairs Osteoblast Production of Pigment Epithelium-Derived Factor. Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research. 2014. PMID: 24519609
  • Mesner L, Ray B, Hsu Y, Manichaikul A, Lum E, Bryda E, Rich S, Rosen C, Criqui M, Allison M, Budoff M, Clemens T, Farber C. Bicc1 is a genetic determinant of osteoblastogenesis and bone mineral density. The Journal of clinical investigation. 2014. PMID: 24789909 | PMCID: PMC4038574
  • Calabrese G, Bennett B, Orozco L, Kang H, Eskin E, Dombret C, De Backer O, Lusis A, Farber C. Systems genetic analysis of osteoblast-lineage cells. PLoS genetics. 2013;8(12): e1003150. PMID: 23300464 | PMCID: PMC3531492
  • Orozco L, Bennett B, Farber C, Ghazalpour A, Pan C, Che N, Wen P, Qi H, Mutukulu A, Siemers N, Neuhaus I, Yordanova R, Gargalovic P, Pellegrini M, Kirchgessner T, Lusis A. Unraveling inflammatory responses using systems genetics and gene-environment interactions in macrophages. Cell. 2012;151(3): 658-70. PMID: 23101632 | PMCID: PMC3513387
  • Farber C, Bennett B, Orozco L, Zou W, Lira A, Kostem E, Kang H, Furlotte N, Berberyan A, Ghazalpour A, Suwanwela J, Drake T, Eskin E, Wang Q, Teitelbaum S, Lusis A. Mouse genome-wide association and systems genetics identify Asxl2 as a regulator of bone mineral density and osteoclastogenesis. PLoS genetics. 2011;7(4): e1002038. PMID: 21490954 | PMCID: PMC3072371
  • Bennett B, Farber C, Orozco L, Kang H, Ghazalpour A, Siemers N, Neubauer M, Neuhaus I, Yordanova R, Guan B, Truong A, Yang W, He A, Kayne P, Gargalovic P, Kirchgessner T, Pan C, Castellani L, Kostem E, Furlotte N, Drake T, Eskin E, Lusis A. A high-resolution association mapping panel for the dissection of complex traits in mice. Genome research. 2010;20(2): 281-90. PMID: 20054062 | PMCID: PMC2813484
  • Hsu Y, Zillikens M, Wilson S, Farber C, Demissie S, Soranzo N, Bianchi E, Grundberg E, Liang L, Richards J, Estrada K, Zhou Y, van Nas A, Moffatt M, Zhai G, Hofman A, van Meurs J, Pols H, Price R, Nilsson O, Pastinen T, Cupples L, Lusis A, Schadt E, Ferrari S, Uitterlinden A, Rivadeneira F, Spector T, Karasik D, Kiel D. An integration of genome-wide association study and gene expression profiling to prioritize the discovery of novel susceptibility Loci for osteoporosis-related traits. PLoS genetics. 2010;6(6): e1000977. PMID: 20548944 | PMCID: PMC2883588