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ARVIND RAO UPPORE KUKKILLAYA

TitleAssistant Professor
InstitutionMD Anderson
DepartmentBioinformatics & Computational Biology
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    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. Brat DJ, Verhaak RG, Aldape KD, Yung WK, Salama SR, Cooper LA, Rheinbay E, Miller CR, Vitucci M, Morozova O, Robertson AG, Noushmehr H, Laird PW, Cherniack AD, Akbani R, Huse JT, Ciriello G, Poisson LM, Barnholtz-Sloan JS, Berger MS, Brennan C, Colen RR, Colman H, Flanders AE, Giannini C, Grifford M, Iavarone A, Jain R, Joseph I, Kim J, Kasaian K, Mikkelsen T, Murray BA, O'Neill BP, Pachter L, Parsons DW, Sougnez C, Sulman EP, Vandenberg SR, Van Meir EG, von Deimling A, Zhang H, Crain D, Lau K, Mallery D, Morris S, Paulauskis J, Penny R, Shelton T, Sherman M, Yena P, Black A, Bowen J, Dicostanzo K, Gastier-Foster J, Leraas KM, Lichtenberg TM, Pierson CR, Ramirez NC, Taylor C, Weaver S, Wise L, Zmuda E, Davidsen T, Demchok JA, Eley G, Ferguson ML, Hutter CM, Mills Shaw KR, Ozenberger BA, Sheth M, Sofia HJ, Tarnuzzer R, Wang Z, Yang L, Zenklusen JC, Ayala B, Baboud J, Chudamani S, Jensen MA, Liu J, Pihl T, Raman R, Wan Y, Wu Y, Ally A, Auman JT, Balasundaram M, Balu S, Baylin SB, Beroukhim R, Bootwalla MS, Bowlby R, Bristow CA, Brooks D, Butterfield Y, Carlsen R, Carter S, Chin L, Chu A, Chuah E, Cibulskis K, Clarke A, Coetzee SG, Dhalla N, Fennell T, Fisher S, Gabriel S, Getz G, Gibbs R, Guin R, Hadjipanayis A, Hayes DN, Hinoue T, Hoadley K, Holt RA, Hoyle AP, Jefferys SR, Jones S, Jones CD, Kucherlapati R, Lai PH, Lander E, Lee S, Lichtenstein L, Ma Y, Maglinte DT, Mahadeshwar HS, Marra MA, Mayo M, Meng S, Meyerson ML, Mieczkowski PA, Moore RA, Mose LE, Mungall AJ, Pantazi A, Parfenov M, Park PJ, Parker JS, Perou CM, Protopopov A, Ren X, Roach J, Sabedot TS, Schein J, Schumacher SE, Seidman JG, Seth S, Shen H, Simons JV, Sipahimalani P, Soloway MG, Song X, Sun H, Tabak B, Tam A, Tan D, Tang J, Thiessen N, Triche T, Van Den Berg DJ, Veluvolu U, Waring S, Weisenberger DJ, Wilkerson MD, Wong T, Wu J, Xi L, Xu AW, Yang L, Zack TI, Zhang J, Aksoy BA, Arachchi H, Benz C, Bernard B, Carlin D, Cho J, DiCara D, Frazer S, Fuller GN, Gao J, Gehlenborg N, Haussler D, Heiman DI, Iype L, Jacobsen A, Ju Z, Katzman S, Kim H, Knijnenburg T, Kreisberg RB, Lawrence MS, Lee W, Leinonen K, Lin P, Ling S, Liu W, Liu Y, Liu Y, Lu Y, Mills G, Ng S, Noble MS, Paull E, Rao A, Reynolds S, Saksena G, Sanborn Z, Sander C, Schultz N, Senbabaoglu Y, Shen R, Shmulevich I, Sinha R, Stuart J, Sumer SO, Sun Y, Tasman N, Taylor BS, Voet D, Weinhold N, Weinstein JN, Yang D, Yoshihara K, Zheng S, Zhang W, Zou L, Abel T, Sadeghi S, Cohen ML, Eschbacher J, Hattab EM, Raghunathan A, Schniederjan MJ, Aziz D, Barnett G, Barrett W, Bigner DD, Boice L, Brewer C, Calatozzolo C, Campos B, Carlotti CG, Chan TA, Cuppini L, Curley E, Cuzzubbo S, Devine K, DiMeco F, Duell R, Elder JB, Fehrenbach A, Finocchiaro G, Friedman W, Fulop J, Gardner J, Hermes B, Herold-Mende C, Jungk C, Kendler A, Lehman NL, Lipp E, Liu O, Mandt R, McGraw M, Mclendon R, McPherson C, Neder L, Nguyen P, Noss A, Nunziata R, Ostrom QT, Palmer C, Perin A, Pollo B, Potapov A, Potapova O, Rathmell WK, Rotin D, Scarpace L, Schilero C, Senecal K, Shimmel K, Shurkhay V, Sifri S, Singh R, Sloan AE, Smolenski K, Staugaitis SM, Steele R, Thorne L, Tirapelli DP, Unterberg A, Vallurupalli M, Wang Y, Warnick R, Williams F, Wolinsky Y, Bell S, Rosenberg M, Stewart C, Huang F, Grimsby JL, Radenbaugh AJ, Zhang J. Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas. N Engl J Med. 2015 Jun 25; 372(26):2481-98. PMID: 26061751.
      View in: PubMed
    2. Yock AD, Rao A, Dong L, Beadle BM, Garden AS, Kudchadker RJ, Court LE. Forecasting longitudinal changes in oropharyngeal tumor morphology throughout the course of head and neck radiation therapy. Med Phys. 2014 Aug; 41(8):081708. PMID: 25086518.
      View in: PubMed
    3. Yock AD, Rao A, Dong L, Beadle BM, Garden AS, Kudchadker RJ, Court LE. Predicting oropharyngeal tumor volume throughout the course of radiation therapy from pretreatment computed tomography data using general linear models. Med Phys. 2014 May; 41(5):051705. PMID: 24784371.
      View in: PubMed
    4. Lim TY, Stafford RJ, Kudchadker RJ, Sankaranarayanapillai M, Ibbott G, Rao A, Martirosyan KS, Frank SJ. MRI characterization of cobalt dichloride-N-acetyl cysteine (C4) contrast agent marker for prostate brachytherapy. Phys Med Biol. 2014 May 21; 59(10):2505-16. PMID: 24778352.
      View in: PubMed
    5. Doucette T, Latha K, Yang Y, Fuller GN, Rao A, Rao G. Survivin transcript variant 2 drives angiogenesis and malignant progression in proneural gliomas. Neuro Oncol. 2014 Sep; 16(9):1220-8. PMID: 24676140.
      View in: PubMed
    6. Jain R, Poisson LM, Gutman D, Scarpace L, Hwang SN, Holder CA, Wintermark M, Rao A, Colen RR, Kirby J, Freymann J, Jaffe CC, Mikkelsen T, Flanders A. Outcome prediction in patients with glioblastoma by using imaging, clinical, and genomic biomarkers: focus on the nonenhancing component of the tumor. Radiology. 2014 Aug; 272(2):484-93. PMID: 24646147.
      View in: PubMed
    7. Pickering CR, Shah K, Ahmed S, Rao A, Frederick MJ, Zhang J, Unruh AK, Wang J, Ginsberg LE, Kumar AJ, Myers JN, Hamilton JD. CT imaging correlates of genomic expression for oral cavity squamous cell carcinoma. AJNR Am J Neuroradiol. 2013 Sep; 34(9):1818-22. PMID: 23764725.
      View in: PubMed
    8. Hamilton JD, Ahmed S, Sandulache VC, Daram SP, Ow TJ, Skinner HD, Rao A, Ginsberg LE, Kumar AJ, Myers JN. Improving imaging diagnosis of persistent nodal metastases after definitive therapy for oropharyngeal carcinoma: specific signs for CT and best performance of combined criteria. AJNR Am J Neuroradiol. 2013 Aug; 34(8):1637-42. PMID: 23471023.
      View in: PubMed
    9. Huang Y, Zaas AK, Rao A, Dobigeon N, Woolf PJ, Veldman T, Ă˜ien NC, McClain MT, Varkey JB, Nicholson B, Carin L, Kingsmore S, Woods CW, Ginsburg GS, Hero AO. Temporal dynamics of host molecular responses differentiate symptomatic and asymptomatic influenza a infection. PLoS Genet. 2011 Aug; 7(8):e1002234. PMID: 21901105.
      View in: PubMed
    10. Hosoya-Ohmura S, Lin YH, Herrmann M, Kuroha T, Rao A, Moriguchi T, Lim KC, Hosoya T, Engel JD. An NK and T cell enhancer lies 280 kilobase pairs 3' to the gata3 structural gene. Mol Cell Biol. 2011 May; 31(9):1894-904. PMID: 21383068.
      View in: PubMed
    11. Rao A, States DJ, Hero AO, Engel JD. Understanding distal transcriptional regulation from sequence, expression and interactome perspectives. J Bioinform Comput Biol. 2010 Apr; 8(2):219-46. PMID: 20401945.
      View in: PubMed
    12. Rao A, Hero AO, States DJ, Engel JD. Using directed information to build biologically relevant influence networks. J Bioinform Comput Biol. 2008 Jun; 6(3):493-519. PMID: 18574860.
      View in: PubMed
    13. Rao A, Hero AO, States DJ, Engel JD. Motif discovery in tissue-specific regulatory sequences using directed information. EURASIP J Bioinform Syst Biol. 2007; 13853. PMID: 18340376.
      View in: PubMed
    14. Rao A, Hero AO, States DJ, Engel JD. Using directed information to build biologically relevant influence networks. Comput Syst Bioinformatics Conf. 2007; 6:145-56. PMID: 17951820.
      View in: PubMed
    15. Rao A, Hero AO, States DJ, Engel JD. Inferring time-varying network topologies from gene expression data. EURASIP J Bioinform Syst Biol. 2007; 51947. PMID: 18309363.
      View in: PubMed
    16. Hasegawa SL, Moriguchi T, Rao A, Kuroha T, Engel JD, Lim KC. Dosage-dependent rescue of definitive nephrogenesis by a distant Gata3 enhancer. Dev Biol. 2007 Jan 15; 301(2):568-77. PMID: 17046739.
      View in: PubMed
    17. Moriguchi T, Takako N, Hamada M, Maeda A, Fujioka Y, Kuroha T, Huber RE, Hasegawa SL, Rao A, Yamamoto M, Takahashi S, Lim KC, Engel JD. Gata3 participates in a complex transcriptional feedback network to regulate sympathoadrenal differentiation. Development. 2006 Oct; 133(19):3871-81. PMID: 16943277.
      View in: PubMed
    18. Spatial habitat features derived from multiparametric magnetic resonance imaging data are associated with molecular subtype and 12-month survival status in glioblastoma multiforme. PLoS One. 10.
    19. Using directed information for influence discovery in interconnected dynamical systems.
    20. The Molecular Taxonomy of Primary Prostate Cancer. Cell. 163:1011-1025.
    21. Automated analysis of immunohistochemistry images identifies candidate location biomarkers for cancers. Proceedings of the National Academy of Sciences of the United States of America. 111:18249-18254.
    22. Biological pathway inference using manifold embedding. 5992-5995.
    23. Comprehensive Two- and Three-Dimensional RNAi Screening Identifies PI3K Inhibition as a Complement to MEK Inhibitor AS703026 for Combination Treatment of Triple-Negative Breast Cancer. Journal of Cancer. 6:1306-1319.
    24. Histopathological Image Classification Using Discriminative Feature-Oriented Dictionary Learning. IEEE Transactions on Medical Imaging. 35:738-751.
    25. A combinatorial radiographic phenotype may stratify patient survival and be associated with invasion and proliferation characteristics in glioblastoma. Journal of Neurosurgery. 124:1008-1017.
    26. Beyond mean pharyngeal constrictor dose for beam path toxicity in non-target swallowing muscles. Radiotherapy and Oncology. 118:304-314.
    27. A TMS320C54 system for effective online signature verification using hidden Markov models.
    28. Kinetic modeling and constrained reconstruction of hyperpolarized [1-13C]-pyruvate offers improved metabolic imaging of tumors. Cancer Research. 75:4708-4717.
    29. Inference of biologically relevant gene influence networks using the directed information criterion.
    30. Texture feature ratios from relative CBV maps of perfusion MRI are associated with patient survival in glioblastoma. American Journal of Neuroradiology. 37:37-43.
    31. A clustering algorithm for gene expression data using wavelet packet decomposition. 316-319.
    32. Automated analysis of human protein atlas immunofluorescence images. 1023-1026.
    33. Adaptive algorithms for spatial adaptive interference rejection. 326-329.
    34. Automated image analysis and inference of gene function from high - Content screens.
    35. Focal radiation therapy dose escalation improves overall survival in locally advanced pancreatic cancer patients receiving induction chemotherapy and consolidative chemoradiation. International Journal of Radiation Oncology Biology Physics. 94:755-765.
    36. Radiomics in glioblastoma. Translational Cancer Research. 5:383-397.
    37. Integrative Analysis of mRNA, microRNA, and Protein Correlates of Relative Cerebral Blood Volume Values in GBM reveals the role for modulators of angiogenesis and tumor proliferation. Cancer Informatics. 15:29-33.
    38. Effect of pulse sequence parameter selection on signal strength in positive-contrast MRI markers for MRI-based prostate postimplant assessment. Medical Physics. 43:4312-4322.
    39. Classification of multiple time-series via boosting. 410-415.
    40. Radiomics in cancer diagnosis, cancer staging, and prediction of response to treatment. Translational Cancer Research. 5:337-339.
    41. Directed-information based feature-selection for tissue-specific sequences. 210-214.
    42. Reconstruction of composite regulator-target splicing networks from high-throughput transcriptome data. BMC Genomics. 16:1-12.
    43. Integrative analysis of multi-modal correlated imaging-genomics data in glioblastoma. 5-8.
    44. Determination of protein location diversity via analysis of immunohistochemical images from the Human Protein Atlas. 1727-1729.
    45. Exploring relationships between multivariate radiological phenotypes and genetic features. 69-72.
    46. NCI workshop report. Translational Oncology. 7:556-569.
    47. Cell cycle dependence of protein subcellular location inferred from static, asynchronous images. 1016-1019.
    48. Molecular Profiling Reveals Biologically Discrete Subsets and Pathways of Progression in Diffuse Glioma. Cell. 164:550-563.
    49. Probabilistic data integration and visualization for understanding transcriptional regulation.
    50. Manifold embedding for understanding mechanisms of transcriptional regulation. 3-4.
    51. DEMARCATE. NeuroImage: Clinical. 12:132-143.
    52. DFDL. 990-994.
    53. Evaluation of tumor-derived MRI-texture features for discrimination of molecular subtypes and prediction of 12-month survival status in glioblastoma. Medical Physics. 42:6725-6735.
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