Cancer Institute

  • Bioinformatics Core Resources

    Publications

    • Hicks C, Asfour R, Pannuti A, Miele L: An Intergrative genomic approach to biomarker discovery in Breast Cancer. Cancer Informatics 2011 (Accepted).
    • Kumar R, Burgess SC, Lawrence ML, Nanduri B. TAAPP: Tiling array analysis and annotation pipeline for prokaryotes. Genomics, Proteomics & Bioinformatics 2011 (Accepted).
    • Hicks C, Pannuti A, Miele L: Associating GWAS Information with the Notch Signaling Pathway Using Transcription Profiling. Cancer Informatics 2011:10 93-108.
    • Paul D, Kumar R, Nanduri B, French T, Pendarvis K, Brown A, Lawrence ML, Burgess SC: Proteome and Membrane Fatty Acid Analyses on Oligotropha carboxidovorans OM5 Grown under Chemolithoautotrophic and Heterotrophic Conditions. PLoS One 2011, 6(2):e17111.
    • McCarthy FM, Gresham CR, Buza TJ, Chouvarine P, Pillai LR, Kumar R, Ozkan S, Wang H, Manda P, Arick T et al: AgBase: supporting functional modeling in agricultural organisms. Nucleic Acids Res 2011, 39 (Database issue):D497-506.
    • Kumar R, Shah P, Swiatlo E, Burgess SC, Lawrence ML, Nanduri B: Identification of novel non-coding small RNAs from Streptococcus pneumoniae TIGR4 using high-resolution genome tiling arrays. BMC Genomics 2010, 11:350.
    • Kumar R, Nanduri B: HPIDB - a unified resource for host-pathogen interactions. BMC Bioinformatics 2010, 11 Suppl 6:S16.
    • Gerds A, Fox-Geiman M, Dawravoo K, Rodriguez T, Toor A, Smith S, Kiley K, Fletcher-Gonzalez D, Hicks C, Stiff P: Randomized phase III trial of pegfilgrastim versus filgrastim after autologous peripheral blood stem cell transplantation. Biol Blood Marrow Transplant 2010, 16(5):678-685.
    • Churbanov A, Vorechovsky I, Hicks C: A method of predicting changes in human gene splicing induced by genetic variants in context of cis-acting elements. BMC Bioinformatics 2010, 11:22.
    • Pendarvis K, Kumar R, Burgess SC, Nanduri B: An automated proteomic data analysis workflow for mass spectrometry. BMC Bioinformatics 2009, 10 Suppl 11:S17.
    • Churbanov A, Vorechovsky I, Hicks C: Computational prediction of splicing regulatory elements shared by Tetrapoda organisms. BMC Genomics 2009, 10:508.
    • Buza TJ, Kumar R, Gresham CR, Burgess SC, McCarthy FM: Facilitating functional annotation of chicken microarray data. BMC Bioinformatics 2009, 10 Suppl 11:S2.
    • Rizzo P, Miao H, D'Souza G, Osipo C, Song LL, Yun J, Zhao H, Mascarenhas J, Wyatt D, Antico G et al: Cross-talk between notch and the estrogen receptor in breast cancer suggests novel therapeutic approaches. Cancer Res 2008, 68(13):5226-5235.
    • Hicks C, Khorasanee J, Gamelli RL: Genomics of burn injury and its promise in clinical practice. J Burn Care Res 2008, 29(6):877-886.
    • Pavithra SR, Kumar R, Tatu U: Systems analysis of chaperone networks in the malarial parasite Plasmodium falciparum. PLoS Comput Biol 2007, 3(9):1701-1715.
    • Li X, Branch CA, Ardekani BA, Bertisch H, Hicks C, DeLisi LE: fMRI study of language activation in schizophrenia, schizoaffective disorder and in individuals genetically at high risk. Schizophr Res 2007, 96(1-3):14-24.
    • Kumar R, Pavithra SR, Tatu U: Three-dimensional structure of heat shock protein 90 from Plasmodium falciparum: molecular modelling approach to rational drug design against malaria. J Biosci 2007, 32(3):531-536.
    • Hicks C, Zhu X, Luke A, Kan D, Adeyemo A, Wu X, Cooper RS: A genome-wide scan of loci linked to serum adiponectin in two populations of African descent. Obesity (Silver Spring) 2007, 15(5):1207-1214.
    • Acharya P, Kumar R, Tatu U: Chaperoning a cellular upheaval in malaria: heat shock proteins in Plasmodium falciparum. Mol Biochem Parasitol 2007, 153(2):85-94.
    • Olman V, Hicks C, Wang P, Xu Y: Gene expression data analysis in subtypes of ovarian cancer using covariance analysis. J Bioinform Comput Biol 2006, 4(5):999-1014.
    • Fejerman L, Wu X, Adeyemo A, Luke A, Zhu X, Hicks C, Cooper RS: The effect of genetic variation in angiotensinogen on serum levels and blood pressure: a comparison of Nigerians and US blacks. J Hum Hypertens 2006, 20(11):882-887.
    • Baron CA, Liu SY, Hicks C, Gregg JP: Utilization of lymphoblastoid cell lines as a system for the molecular modeling of autism. J Autism Dev Disord 2006, 36(8):973-982.
    • Wang P, Yan B, Guo JT, Hicks C, Xu Y: Structural genomics analysis of alternative splicing and application to isoform structure modeling. Proc Natl Acad Sci U S A 2005, 102(52):18920-18925.
    • Khachane A, Kumar R, Jain S, Banumathy G, Singh V, Nagpal S, Tatu U: "Plasmo2D": an ancillary proteomic tool to aid identification of proteins from Plasmodium falciparum. J Proteome Res 2005, 4(6):2369-2374.