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 Cancer Genetics 
Raj Chari
Raj Chari
    Department: Cancer Genetics
    Research Role: Graduate Student
    Degree Sought: PhD,  Pathology & Laboratory Medicine,  UBC
    Advisor: Wan Lam
    Education: BSc (Biochemistry), UBC, 2001
    BSc (Computer Science), UBC, 2004
    Birthplace: Vancouver, British Columbia, Canada 
    Phone: 604-675-8000x7703

    Research Interests:

  • Integrative genomics of lung cancer

    • With a background in both the computational and biological sciences, my interests are diverse. My focus currently is looking at data mining and analysis techniques for array Comparative Genomic Hybridization (CGH) as well high throughput gene expression. Some of the biological questions I am interested in are involved with lung cancer progression, cross-comparative analysis of different types and sub-types of cancers, as well as the development of tools for integrative genomics analysis. Lastly, I am interested in investigating genomic changes associated with various chemopreventive agents.

    Acknowledgements

    Generous funding from the Canadian Institutes for Health Research, the Michael Smith Foundation for Health Research, and the Betty Rice Award.

    Publications

    1. Chari R, Thu KL, Wilson IM, Lockwood WW, Lonergan KM, Coe BP, Malloff CA, Gazdar AF, Lam S, Garnis C, MacAulay CE, Alvarez CE, Lam WL (2010) Integrating the multiple dimensions of genomic and epigenomic lanscapes of cancer. Cancer and Metastasis Reviews 29: 73-93.

    2. Lonergan, KM, Chari R, Coe BP, Wilson IM, Tsao MS, Ng RT, MacAulay C, Lam S, Lam WL (2010) Transcriptome profiles of carcinoma-in-situ and invasive non-small cell lung cancer as revealed by SAGE. PLoS ONE 5: e9162, 1-22.

    3. Soh J*, Okumura N*, Lockwood WW, Yamamoto H, Shigematsu H, Zhang W, Chari R, Shames D, Tang X, MacAulay C, Varella-Garcia M, Vooder T, Wistuba II, Lam S, Brekken R, Toyooka S, Minna JD, Lam WL, Gazdar AF (2009) Oncogene mutations, copy number gains and mutant allele specific imbalance (MASI) frequently occur together in tumor cells. PLoS ONE 4: e7464, 1-13.

    4. Garnis C, Chari R, BuysTPH, Zhang L, Ng RT, Rosin MP, Lam WL (2009) Genomic imbalances in precancerous tissues signal oral cancer risk. Molecular Cancer 8: 50, 1-7.

    5. Coe BP, Lockwood WW, Chari R, Lam WL (2009) Comparative genomic hybridization on BAC arrays. Methods in Molecular Biology 556: 7-19.

    6. Chari R, Coe BP, Wedseltoft C, Benetti M, Wilson IM., Vucic EA., MacAulay C, Ng RT, Lam WL (2008) SIGMA2: A system for the integrative genomic multi-dimensional analysis of cancer genomes, epigenomes, and transcriptomes. BMC Bioinformatics 9:422, 1-12.

    7. Campbell JM*, Lockwood WW*, Buys THP, Chari R, Coe BP, Lam S, Lam WL (2008) Integrative genomic and gene expression analysis of chromosome 7 identified novel oncogene loci in non-small cell lung cancer. Genome 51: 1032-9.

    8. Coe BP, Chari R, Lockwood WW, Lam WL (2008) Evolving strategies for global gene expression analysis of cancer. Journal of Cellular Physiology 217: 590-7.

    9. Lee EHL*, Chari R*, Lam A, Ng RT, Yee J, English J, Evans KG, MacAulay C, Lam S, Lam WL (2007) Disruption of the non-canonical Wnt pathway in lung squamous cell carcinoma. Clinical Medicine: Oncology 2: 169-79. *these authors contributed equally

    10. Lockwood WW, Chari R, Coe BP, Girard L, MacAulay C, Lam S, Gazdar AF, Minna JD, Lam WL (2008) DNA amplification is a ubiquitous mechanism of oncogene activation in lung and other cancers. Oncogene 27: 4615-4624.

    11. Shadeo A, Chari R, Lonergan KM, Pusic A, Miller D, Ehlen T, Van Niekerk D, Matisic J, Richards-Kortum R, Follen M, Guillaud M, Lam WL*, MacAulay C* (2008) Up regulation in gene expression of chromatin remodelling factors in cervical intraepithelial neoplasia. BMC Genomics 9: 64, 1-14.

    12. Tsui IFL, Chari R, Buys TPH, Lam WL (2007) Public databases and software for the pathway analysis of cancer genomes. Cancer Informatics 3, 389-407.

    13. Buys TPH, Chari R, Lee E, Zhang M, MacAulay C, Lam S, Lam WL, Ling V (2007) Genetic changes in the evolution of multidrug resistance for cultured human ovarian cancer cells. Genes Chromosomes and Cancer 46(12):1069-79.

    14. Chari R, Lonergan KM, Ng RT, MacAulay C, Lam S, Lam WL (2007) Effect of active smoking on the bronchial epithelial transcriptome. BMC Genomics 8(1):297, 1-13.

    15. Shadeo A, Chari R, Vatcher G, Campbell J, Lonergan KM, Matisic J, van NieKerk D, Ehlen T, Miller D, Follen M, Lam WL, MacAulay C (2007) Comprehensive serial analysis of gene expression of the cervical transcriptome. BMC Genomics 8(1):142, 1-11.

    16. deLeeuw RJ, Zettl A, Klinker E, Haralambieva E, Trottier M, Chari R, Ge Y, Gascoyne RD, Chott A, Muller-Hermelink HK, Lam WL (2007) Whole genome analysis and HLA haplotyping of enteropathy-type T-cell lymphoma reveals two distinct lymphoma subtypes. Gastroenterology 132(5):1902-11.

    17. Chari R, Lockwood WW, Coe BP, Chu A, Macey D, Thomson A, Davies JJ, MacAulay C, Lam WL (2006) SIGMA: A system for the integrative genomic microarray analysis of cancer genomes. BMC Genomics 7(1):324, 1-11. **Highly accessed article, over 500+ accesses in first two weeks**

    18. Lonergan KM, Chari R, deLeeuw RJ, Shadeo A, Chi B, Tsao M, Jones S, Marra M, Ng R, MacAulay C, Lam S, Lam WL (2006) Identification of novel lung genes in bronchial epithelium by serial analysis of gene expression. American Journal of Respiratory Cell and Molecular Biology 35(6):651-61.

    19. Coe BP, Lockwood WW, Girard L, Chari R, Minna JD, MacAulay C, Lam S, Gazdar AF, Lam WL (2006) Differential regulation of cell cycle pathways in small cell and non-small cell lung cancer. British Journal of Cancer (12):1927-35.

    20. Chari R*, Lockwood WW*, Lam WL (2006) Computational methods for the analysis of array comparative genomic hybridization. Cancer Informatics (2):48-58. *these authors contributed equally

    21. Lockwood WW*, Chari R*, Chi B, Lam WL (2006) Recent advances in array comparative genomic hybridization technologies and their applications in human genetics. European Journal of Human Genetics, 14(2):139-48. *these authors contributed equally

    22. Buys TPH, Wilson IM, Coe BP, Lee EHL, Kennett JY, Lockwood WW, Tsui IFL, Shadeo A, Chari R, Garnis C, Lam WL (2006) Detailed Comparisons of Cancer Genomes. In Comparative Genomics: Fundamental and Applied Perspectives (Brown JR, ed.), CRC Press / Taylor and Francis, LLC. Boca Raton, FLA, pp. 245-259.

    23. Buys TPH, Wilson IM, Coe BP, Lockwood WW, Davies JJ, Chari R, DeLeeuw RJ, Shadeo A, MacAulay C, Lam WL (2005) Key Features of BAC Array Production and Usage. In DNA Microarrays (Methods Express Series) (Schena M, ed), Scion Publishing, Ltd., Bloxham. pp. 115-145.

     BCCRC | Cancer Genetics | Lam Lab | Lab Publications |

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