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Rajagopal Chari, PH.D.

TitleResearch Fellow in Genetics (INT)
InstitutionHarvard Medical School
DepartmentGenetics
AddressHarvard Medical School
Genetics NRB 330
77 Avenue Louis Pasteur
Boston MA 02115
Phone617/432-3664
Fax617/432-7663
vCardDownload vCard (login for email)

 Bibliographic 
 selected publications
Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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  1. Yang L, Grishin D, Wang G, Aach J, Zhang CZ, Chari R, Homsy J, Cai X, Zhao Y, Fan JB, Seidman C, Seidman J, Pu W, Church G. Targeted and genome-wide sequencing reveal single nucleotide variations impacting specificity of Cas9 in human stem cells. Nat Commun. 2014; 5:5507.
    View in: PubMed
  2. Vucic EA, Chari R, Thu KL, Wilson IM, Cotton AM, Kennett JY, Zhang M, Lonergan KM, Steiling K, Brown CJ, McWilliams A, Ohtani K, Lenburg ME, Sin DD, Spira A, Macaulay CE, Lam S, Lam WL. DNA methylation is globally disrupted and associated with expression changes in chronic obstructive pulmonary disease small airways. Am J Respir Cell Mol Biol. 2014 May; 50(5):912-22.
    View in: PubMed
  3. Laserson U, Vigneault F, Gadala-Maria D, Yaari G, Uduman M, Vander Heiden JA, Kelton W, Taek Jung S, Liu Y, Laserson J, Chari R, Lee JH, Bachelet I, Hickey B, Lieberman-Aiden E, Hanczaruk B, Simen BB, Egholm M, Koller D, Georgiou G, Kleinstein SH, Church GM. High-resolution antibody dynamics of vaccine-induced immune responses. Proc Natl Acad Sci U S A. 2014 Apr 1; 111(13):4928-33.
    View in: PubMed
  4. Pikor LA, Lockwood WW, Thu KL, Vucic EA, Chari R, Gazdar AF, Lam S, Lam WL. YEATS4 Is a Novel Oncogene Amplified in Non-Small Cell Lung Cancer That Regulates the p53 Pathway. Cancer Res. 2013 Dec 15; 73(24):7301-12.
    View in: PubMed
  5. Ghayee HK, Bhagwandin VJ, Stastny V, Click A, Ding LH, Mizrachi D, Zou YS, Chari R, Lam WL, Bachoo RM, Smith AL, Story MD, Sidhu S, Robinson BG, Nwariaku FE, Gazdar AF, Auchus RJ, Shay JW. Progenitor cell line (hPheo1) derived from a human pheochromocytoma tumor. PLoS One. 2013; 8(6):e65624.
    View in: PubMed
  6. Briggs AW, Rios X, Chari R, Yang L, Zhang F, Mali P, Church GM. Iterative capped assembly: rapid and scalable synthesis of repeat-module DNA such as TAL effectors from individual monomers. Nucleic Acids Res. 2012 Aug; 40(15):e117.
    View in: PubMed
  7. Lockwood WW, Wilson IM, Coe BP, Chari R, Pikor LA, Thu KL, Solis LM, Nunez MI, Behrens C, Yee J, English J, Murray N, Tsao MS, Minna JD, Gazdar AF, Wistuba II, MacAulay CE, Lam S, Lam WL. Divergent genomic and epigenomic landscapes of lung cancer subtypes underscore the selection of different oncogenic pathways during tumor development. PLoS One. 2012; 7(5):e37775.
    View in: PubMed
  8. Thu KL, Vucic EA, Chari R, Zhang W, Lockwood WW, English JC, Fu R, Wang P, Feng Z, MacAulay CE, Gazdar AF, Lam S, Lam WL. Lung adenocarcinoma of never smokers and smokers harbor differential regions of genetic alteration and exhibit different levels of genomic instability. PLoS One. 2012; 7(3):e33003.
    View in: PubMed
  9. Lockwood WW, Thu KL, Lin L, Pikor LA, Chari R, Lam WL, Beer DG. Integrative genomics identified RFC3 as an amplified candidate oncogene in esophageal adenocarcinoma. Clin Cancer Res. 2012 Apr 1; 18(7):1936-46.
    View in: PubMed
  10. Vucic EA, Thu KL, Robison K, Rybaczyk LA, Chari R, Alvarez CE, Lam WL. Translating cancer 'omics' to improved outcomes. Genome Res. 2012 Feb; 22(2):188-95.
    View in: PubMed
  11. Starczynowski DT, Lockwood WW, Deléhouzée S, Chari R, Wegrzyn J, Fuller M, Tsao MS, Lam S, Gazdar AF, Lam WL, Karsan A. TRAF6 is an amplified oncogene bridging the RAS and NF-?B pathways in human lung cancer. J Clin Invest. 2011 Oct; 121(10):4095-105.
    View in: PubMed
  12. Thu KL, Chari R, Lockwood WW, Lam S, Lam WL. miR-101 DNA copy loss is a prominent subtype specific event in lung cancer. J Thorac Oncol. 2011 Sep; 6(9):1594-8.
    View in: PubMed
  13. Thu KL, Pikor LA, Chari R, Wilson IM, Macaulay CE, English JC, Tsao MS, Gazdar AF, Lam S, Lam WL, Lockwood WW. Genetic disruption of KEAP1/CUL3 E3 ubiquitin ligase complex components is a key mechanism of NF-kappaB pathway activation in lung cancer. J Thorac Oncol. 2011 Sep; 6(9):1521-9.
    View in: PubMed
  14. Gibb EA, Enfield KS, Stewart GL, Lonergan KM, Chari R, Ng RT, Zhang L, MacAulay CE, Rosin MP, Lam WL. Long non-coding RNAs are expressed in oral mucosa and altered in oral premalignant lesions. Oral Oncol. 2011 Nov; 47(11):1055-61.
    View in: PubMed
  15. Enfield KS, Stewart GL, Pikor LA, Alvarez CE, Lam S, Lam WL, Chari R. MicroRNA gene dosage alterations and drug response in lung cancer. J Biomed Biotechnol. 2011; 2011:474632.
    View in: PubMed
  16. Gibb EA, Enfield KS, Tsui IF, Chari R, Lam S, Alvarez CE, Lam WL. Deciphering squamous cell carcinoma using multidimensional genomic approaches. J Skin Cancer. 2011; 2011:541405.
    View in: PubMed
  17. Starczynowski DT, Morin R, McPherson A, Lam J, Chari R, Wegrzyn J, Kuchenbauer F, Hirst M, Tohyama K, Humphries RK, Lam WL, Marra M, Karsan A. Genome-wide identification of human microRNAs located in leukemia-associated genomic alterations. Blood. 2011 Jan 13; 117(2):595-607.
    View in: PubMed
  18. Chari R, Lonergan KM, Pikor LA, Coe BP, Zhu CQ, Chan TH, MacAulay CE, Tsao MS, Lam S, Ng RT, Lam WL. A sequence-based approach to identify reference genes for gene expression analysis. BMC Med Genomics. 2010; 3:32.
    View in: PubMed
  19. Lockwood WW, Chari R, Coe BP, Thu KL, Garnis C, Malloff CA, Campbell J, Williams AC, Hwang D, Zhu CQ, Buys TP, Yee J, English JC, Macaulay C, Tsao MS, Gazdar AF, Minna JD, Lam S, Lam WL. Integrative genomic analyses identify BRF2 as a novel lineage-specific oncogene in lung squamous cell carcinoma. PLoS Med. 2010 Jul; 7(7):e1000315.
    View in: PubMed
  20. Coe BP, Chari R, MacAulay C, Lam WL. FACADE: a fast and sensitive algorithm for the segmentation and calling of high resolution array CGH data. Nucleic Acids Res. 2010 Aug; 38(15):e157.
    View in: PubMed
  21. Chari R, Coe BP, Vucic EA, Lockwood WW, Lam WL. An integrative multi-dimensional genetic and epigenetic strategy to identify aberrant genes and pathways in cancer. BMC Syst Biol. 2010; 4:67.
    View in: PubMed
  22. 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. Integrating the multiple dimensions of genomic and epigenomic landscapes of cancer. Cancer Metastasis Rev. 2010 Mar; 29(1):73-93.
    View in: PubMed
  23. Lonergan KM, Chari R, Coe BP, Wilson IM, Tsao MS, Ng RT, Macaulay C, Lam S, Lam WL. Transcriptome profiles of carcinoma-in-situ and invasive non-small cell lung cancer as revealed by SAGE. PLoS One. 2010; 5(2):e9162.
    View in: PubMed
  24. Soh J, Okumura N, Lockwood WW, Yamamoto H, Shigematsu H, Zhang W, Chari R, Shames DS, Tang X, MacAulay C, Varella-Garcia M, Vooder T, Wistuba II, Lam S, Brekken R, Toyooka S, Minna JD, Lam WL, Gazdar AF. Oncogene mutations, copy number gains and mutant allele specific imbalance (MASI) frequently occur together in tumor cells. PLoS One. 2009; 4(10):e7464.
    View in: PubMed
  25. Garnis C, Chari R, Buys TP, Zhang L, Ng RT, Rosin MP, Lam WL. Genomic imbalances in precancerous tissues signal oral cancer risk. Mol Cancer. 2009; 8:50.
    View in: PubMed
  26. Coe BP, Lockwood WW, Chari R, Lam WL. Comparative genomic hybridization on BAC arrays. Methods Mol Biol. 2009; 556:7-19.
    View in: PubMed
  27. Coe BP, Chari R, Lockwood WW, Lam WL. Evolving strategies for global gene expression analysis of cancer. J Cell Physiol. 2008 Dec; 217(3):590-7.
    View in: PubMed
  28. Campbell JM, Lockwood WW, Buys TP, Chari R, Coe BP, Lam S, Lam WL. Integrative genomic and gene expression analysis of chromosome 7 identified novel oncogene loci in non-small cell lung cancer. Genome. 2008 Dec; 51(12):1032-9.
    View in: PubMed
  29. Chari R, Coe BP, Wedseltoft C, Benetti M, Wilson IM, Vucic EA, MacAulay C, Ng RT, Lam WL. SIGMA2: a system for the integrative genomic multi-dimensional analysis of cancer genomes, epigenomes, and transcriptomes. BMC Bioinformatics. 2008; 9:422.
    View in: PubMed
  30. 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. Up regulation in gene expression of chromatin remodelling factors in cervical intraepithelial neoplasia. BMC Genomics. 2008; 9:64.
    View in: PubMed
  31. Tsui IF, Chari R, Buys TP, Lam WL. Public databases and software for the pathway analysis of cancer genomes. Cancer Inform. 2007; 3:379-97.
    View in: PubMed
  32. Buys TP, Chari R, Lee EH, Zhang M, MacAulay C, Lam S, Lam WL, Ling V. Genetic changes in the evolution of multidrug resistance for cultured human ovarian cancer cells. Genes Chromosomes Cancer. 2007 Dec; 46(12):1069-79.
    View in: PubMed
  33. Chari R, Lonergan KM, Ng RT, MacAulay C, Lam WL, Lam S. Effect of active smoking on the human bronchial epithelium transcriptome. BMC Genomics. 2007; 8:297.
    View in: PubMed
  34. 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. Comprehensive serial analysis of gene expression of the cervical transcriptome. BMC Genomics. 2007; 8:142.
    View in: PubMed
  35. Deleeuw RJ, Zettl A, Klinker E, Haralambieva E, Trottier M, Chari R, Ge Y, Gascoyne RD, Chott A, Müller-Hermelink HK, Lam WL. Whole-genome analysis and HLA genotyping of enteropathy-type T-cell lymphoma reveals 2 distinct lymphoma subtypes. Gastroenterology. 2007 May; 132(5):1902-11.
    View in: PubMed
  36. Chari R, Lockwood WW, Lam WL. Computational methods for the analysis of array comparative genomic hybridization. Cancer Inform. 2006; 2:48-58.
    View in: PubMed
  37. Chari R, Lockwood WW, Coe BP, Chu A, Macey D, Thomson A, Davies JJ, MacAulay C, Lam WL. SIGMA: a system for integrative genomic microarray analysis of cancer genomes. BMC Genomics. 2006; 7:324.
    View in: PubMed
  38. Lonergan KM, Chari R, Deleeuw RJ, Shadeo A, Chi B, Tsao MS, Jones S, Marra M, Ling V, Ng R, Macaulay C, Lam S, Lam WL. Identification of novel lung genes in bronchial epithelium by serial analysis of gene expression. Am J Respir Cell Mol Biol. 2006 Dec; 35(6):651-61.
    View in: PubMed
  39. Lockwood WW, Chari R, Chi B, Lam WL. Recent advances in array comparative genomic hybridization technologies and their applications in human genetics. Eur J Hum Genet. 2006 Feb; 14(2):139-48.
    View in: PubMed
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