Alexander Bishop, D. Phil.

Publications

Gonçalves RM, Delgobo M, Agnes JP, das Neves RN, Falchetti M, Casagrande T, Garcia APV , Vieira T, Somensi N, Bruxel MA, Mendes DAGB, Rafacho A, Báfica A, Gelain DP, JFonseca Moreira  J-CF, Cassali  GD, Bishop AJR, and Zanotto-Filho A. COX-2 promotes mammary adipose tissue inflammation, local estrogen biosynthesis, and carcinogenesis in high-sugar/fat diet treated mice. Cancer Lett 2021 Jan 9;502:44-57. (doi: 10.1016/j.canlet.2021.01.003)

Abraham KJ, Chan JNY, Nein Khosraviani N, Gorthi A, Samman A, Zhao DY, Wang M, Singhania R, Ostrowski LA, Oshidari R, Pietrobon V, Ohh M, Dickson BC, De Carvalho DD, Lee S, Greenblatt JF, Bishop AJR and Mekhail K. Nucleolar RNA polymerase II drives ribosome biogenesis. Nature 2020 Jun 16 (doi: 10.1038/s41586-020-2497-0)

Pan H, Jian M, Ghadiyaram A, Kaur P, Miller HE, Ta H, Liu M, Fan Y, Mahn C, Gorthi A, You C, Piehler J, Riehn R, Bishop AJR, Tao YJ and Wang H. Cohesin SA1 and SA2 are RNA binding proteins that localize to RNA containing regions on DNA. Nucleic Acids Research 2020 Jun 4;48(10):5639-5655. doi: 10.1093/nar/gkaa284, PMID: 32352519

Miller HE, Gorthi A, Bassani N, Lawrence LA, Iskra BS and Bishop AJR, Reconstruction of Ewing Sarcoma Developmental Context from Mass-Scale Transcriptomics Reveals Characteristics of EWSR1-FLI1 Permissibility. Cancers 2020 Apr 11; 12(4):948

Schafer ES, Rau RE, Berg S, Liu X, Minard CG, Bishop AJR, Romero JC, Hicks MJ, Nelson, Jr, MD, Voss S, Reid JM, Fox E, Weigel BJ and Blaney SM. Phase 1/2 trial of talazoparib in combination with temozolomide in children and adolescents with refractory/recurrent solid tumors including Ewing sarcoma: a Children’s Oncology Group Phase 1 Consortium study (ADVL1411). Pediatric Blood & Cancer2019 Nov 14:e28073 PMID 31724813

Lambo S, Gröbner S, Rausch T, Waszak S, Schmidt C, Gorthi A, Romero JC, Mauermann M, Brabetz S, Krausert S, Buchhalter I, Koster J, Sill M, Hübner J, Mack N, Schwalm B, Ryzhova M, Hovestad V, Papillon-Cavanagh S, Chan J, Landgraf P, Ho B, Milde T, Witt O, Ecker J, Sahm F, Sumerauer D, Ellison D, Orr B, Darabi A, Haberler C, Figarella-Branger D, Wesseling P, Schittenhelm J, Taylor M, Gil-da-Costa M, Łastowska M, Grajkowska W, Hasselblatt M, Hauser P, Pietsch T, Uro-Coste E, Bourdeaut F, Masliah-Planchon J, Rigau V, Li XN, Schüller U, Snuderl M, Karajannis M, Giangaspero F, Jabado N, von Deimling A, Jones D, Korbel J, von Hoff K, Lichter P, Huang A, Bishop A, Pfister S, Korshunov A, Kool M. The Molecular Landscape of Embryonal Tumors with Multilayered Rosettes at Diagnosis and Relapse Nature 2019 Dec 12; 576(7786):274-280

Zanotto-Filho A, Rajamanickam S, Loranc E, Masamsetti P, Gorthi A, Romero JC, Tonapi SS, Goncalves RM, Reddick RL, Benavides R, Kuhn J, Chen Y and Bishop AJR. Sorafenib improves alkylating therapy by blocking induced inflammation, invasion and angiogenesis in breast cancer cells. Cancer Letters 2018Mar 30;425:101-115 doi: 10.1016/j.canlet.2018.03.037

Barron L and Bishop AJR. P53 and HIS-tag binding. J Proteomics Bioinform 2018 11: 062-067. doi: 10.4172/jpb.1000467 

Gorthi A, Romero JC, Loranc E, Cao L, Lawrence LA, Goodale E, Iniguez AB, Bernard X, Masamsetti VP, Roston S, Lawlor E, Toretsky JA, Stegmaier K, Lessnick SL, Chen Y and Bishop AJR. EWS-FLI1 increases transcription to cause R-loops and block BRCA1 repair in Ewing sarcoma. Nature 2018 Mar 15;555(7696):387-391 This paper was highlighted in Cancer Discovery.

Countryman P, Fan Y, Gorthi A, Pan H, Strickland J, Kaur P, Wang X, Lin J, Lei X, White C, You C, Wirth N, Tessmer I, Piehler J, Riehn R, Bishop AJR, Tao YJ and Wang H. Cohesin SA2 is a sequence independent DNA binding protein that recognizes DNA replication and repair intermediates. J Biol Chem.2018 Jan 19;293(3):1054-1069

Liu R, Gorthi A, Jin Y, Bishop AJR and Chen Y. Computational Tools for Genome-wide R-loops Identification and Characterization. Int. J. of Computational Biology and Drug Design 2017 Feb; 10(2): 123-136

Zanotto-Filho A, Masamsetti P, Loranc E, Tonapi SS, Gorthi A, Bernard X, Goncalves RM, Moreira JCF, Chen Y and Bishop AJR. Alkylation-induced NRF2 blocks endoplasmic reticulum stress-mediated apoptosis via control of glutathione pools and protein thiol homeostasis. Molecular Cancer Therapeutics2016 Dec; 15(12):3000-3014 

de Araujo PR, Gorthi A, da Silva AE, Tonapi SS, Vo DT, Burns SC, Qiao M, Uren PJ, Yuan ZM, Bishop AJR and Penalva LOF. Musashi1 impacts radio-resistance in glioblastoma by controlling DNA-PKcs. American Journal of Pathology 2016 Sep;186(9):2271-2278

Zanotto-Filho A, Dashnamoorthy R, Loranc E, de Souza LHT, Moreira JCF, Suresh U, Chen Y, Bishop AJR. Combined gene expression and RNAi screening to identify alkylation damage survival pathways from fly to human. PLoS One 2016 Apr; 11(4): e0153970

Rajamanisckam S, Panneerdoss S, Gorthi A, Timilsina S, Kovalsky D, Hanes M, Vadlamudi R, Chen Y, Bishop AJ, Arbiser JL and Rao MK. FOXM1-Mediated DNA repair by Imipramine Blue Suppresses Breast Cancer Growth and Metastasis Clinical Cancer Research 2016 Feb; 

Zanotto-Filho A, Braganhol E, Klafke K, Figueiró F, Terra SR, Paludo FJ, Morrone M, Bristot IJ, Battastini AM, Forcelini CM, Bishop AJR, Gelain DP, Moreira JCF. Autophagy inhibition improves the efficacy of curcumin/temozolomide combination therapy in glioblastomas. Cancer Letters 2015 Mar; 358(2): 220-231

Brown AD, Sager B, Gorthi A, Tonapi SS, Brown EJ, Bishop AJR. ATR suppresses endogenous DNA damage and allows completion of homologous recombination repair. PLoS One 2014 Mar; 9(3): e91222

Karia B, Martinez JA, Bishop AJR. Induction of Homologous Recombination Following in utero Exposure to DNA-Damaging Agents. DNA Repair 2013 Nov; 12(11):912-921

Lei C, Tamim S, Bishop AJR, Ruan J. Fully automated protein complex prediction based on topological similarity and community structure. Proteome Science 2013 Nov; 11(Suppl 1):S9

Kassan M, Choi S, Galan M, Bishop AJR, Umezawa K, Trebak M and Matrougui K. NFκB Impairs Vascular Function Through PARP-1, SP-1 and COX2-Dependent Mechanisms in Type 2 Diabetes. Diabetes 2013 Jun; 62(6): 2078-2087

Hsu A. F-S, Serpedin E, Hsiao T-H, Bishop AJR, Dougherty ER and Chen Y. Reducing confounding and suppression effects in TCGA data: an integrated analysis of chemotherapy response in ovarian cancer. BMC Genomics 2012 Oct; 13(Suppl 6): S13

Doderer M, Anguiano Z, Suresh U, Ravi D, Bishop AJR and Chen Y. Multisource Biological Pathway Consolidation. BMC Genomics 2012 Oct; 13(Suppl 6): S18

Kim TM, Ko JH, Hu L, Kim SA, Bishop AJR, Vijg J, Montagna C and Hasty P. RAD51 Mutations Cause Replication Defects and Chromosomal Instability. Molecular and Cellular Biology 2012 Sep; 32(18): 3663-3680

Lee IH, Cao L, Kawai Y, Fergusson MM, Liu J, Rovira I, Bishop AJR, Motoyama N, Komatsu M and Finkel T. Atg7 modulates p53 activity to regulate cell cycle and survival during metabolic stress. Science 2012 Apr; 336(6078): 225-228

Zimmer SN, Lemieux ME, Karia BP, Day C, Zhou T, Zhou Q, Kung AL, Suresh U, Chen Y, Kinney MC, Bishop AJR, Rebel VI. Mice heterozygous for CREB binding protein are hypersensitive to γ-radiation and invariably develop myelodysplastic/myeloproliferative disease Experimental Hematology 2012 Apr; 40(4): 295-306

Lin S, Yu L, Yang J, Karia B, Bishop AJR, Jackson J, Lozano G, Copland JA, Mu X, Sun B and Sun L-Z. Mutant p53 disrupts the role of ShcA in balancing the Smad-dependent and -independent signaling activity of TGF-β. Journal of Biological Chemistry 2011 Dec; 286(51): 44023-44034

Brown AD, Claybon AB, Bishop AJR. A conditional mouse model for measuring the frequency of homologous recombination events in vivo in the absence of essential genes. Molecular and Cellular Biology 2011 Sep; 31(17):3593-602

Claybon AB and Bishop AJR. Dissection of the mouse eye for a wholemount of the retinal pigment epithelium http://www.jove.com/details.stp?id=2563 J Vis Exp 2011 Feb; 48 

Ravi D, Chen Y, Karia B, Brown A, Gu TT, Li J, Carey MS, Hennessy BT and Bishop AJR. 14-3-3 sexpression effects G2/M response to oxygen and correlates with ovarian cancer metastasis. PLoS One2011 Jan;  e15864

Claybon AB, Karia B, Bruce C and Bishop AJR. PARP1 suppresses homologous recombination events in mice in vivo Nucleic Acids Research 2010 Jul; 38: 7538-7545

Brown AD, Claybon AB and Bishop AJR. Mouse WRN Helicase Domain Is Not Required for Spontaneous Homologous Recombination-Mediated DNA Deletion. Journal of Nucleic Acids 2010, Article ID 356917, 6 pages

Wiles A, Doderer M, Ruan J, Gu TT, Ravi D, Blackman B and Bishop AJR. Building and Analyzing Protein Networks by Cross-species Comparisons. BMC Systems Biology 2010; 4(1):36

Ravi D, Wiles AM, Bhavani S, Ruan J, Leder P and Bishop AJR. A network of conserved damage survival pathways revealed by a genomic RNAi screen. PLoS Genetics 2009 Jun: 100052-100052.

Wiles AM, Ravi D, Selvaraj B and Bishop AJR. An analysis of normalization methods for Drosophila RNAi genomic screens and development of a robust validation scheme Journal of Biomolecular Screening 2008 Aug; 13(8):777-784.

Bishop AJR, Kosaras B, Hollander MC, Fornace A, Sidman RL and Schiestl RH. p21 controls patterning but not homologous recombination in RPE development. DNA Repair (Amst) 2006 Jan; 5(1):111-120.

Leder A, McMenamin J, Fontaine K, Bishop AJR, and Leder P. zeta-/- Thalassemic mice are affected by two modifying loci and display unanticipated somatic recombination leading to inherited variation. Hum Mol Genet 2005 Mar; 14(5):615-625.

Secretan MB, Scuric Z, Oshima J, Bishop AJR, Howlett NG, Yau D and Schiestl RH. Effect of Ku86 and DNA-PKcs deficiency on non-homologous end-joining and homologous recombination using a transient transfection assay. Mutat Res 2004 Oct; 554(1-2):351-364.

Reliene R, Bishop AJR, Li G, and Schiestl RH. Ku86 deficiency leads to reduced intrachromosomal homologous recombination in vivo in mice. DNA Repair (Amst) 2004 Feb; 3(2):103-111.

Bishop AJR, Hollander MC, Kosaras B, Sidman RL, Fornace AJ and Schiestl RH. Atm-, p53-, and Gadd45a-deficient mice show an increased frequency of homologous recombination at different stages during development. Cancer Res 2003 Sep;  63(17):5335-5343.

Leder A, Lebel M, Zhou F, Fontaine K, Bishop AJR, Leder P. Genetic interaction between the unstable v-Ha-Ras transgene (Tg.AC) and the murine Werner syndrome gene: Transgene instability and tumorigenesis Oncogene 2002 Sep; 21(43):6657-6668.

Bishop AJR, Kosaras B, Carls N, Sidman RL and Schiestl RH. Susceptibility of proliferating cells to benzo[a]pyrene-induced homologous recombination in mice. Carcinogenesis 2001 Apr; 22(4):641-649.

Bishop AJR, Kosaras B, Sidman RL and Schiestl RH. Benzo(a)pyrene and X-rays induce reversions of the pink-eyed unstable mutation in the retinal pigment epithelium of mice. Mutat Res 2000 Dec; 457(1-2):31-40.

Bishop AJR, Louis EJ and Borts RH. Minisatellite variants generated in yeast meiosis involve DNA removal during gene conversion. Genetics 2000 Sep; 156(1):7-20.

Bishop AJR, Barlow C, Wynshaw-Boris AJ and Schiestl RH. Atm deficiency causes an increased frequency of intrachromosomal homologous recombination in mice. Cancer Res 2000 Jan; 60(2):395-399.

Aubrecht J, Secretan MB, Bishop AJR and Schiestl RH. Involvement of p53 in X-ray induced intrachromosomal recombination in mice. Carcinogenesis 1999 Dec; 20(12):2229-2236.

REVIEW ARTICLES:

Gorthi A and Bishop AJR. Ewing sarcoma fusion oncogene: At the crossroads of transcription and DNA damage response. Molecular and Cellular Oncology 2018 May 29;5(4):e1465014

Zhou T, Chen P, Gu J, Bishop AJR, Scott LM, Hasty P and Rebel VI. Potential Relationship between Inadequate Response to DNA Damage and Development of Myelodysplastic Syndrome. International Journal of Molecular Sciences 2015 Jan; 16(1):966-989

Zhou T, Hasty P, Walter CA, Bishop AJR, Scott LM and Rebel VI Myelodysplastic Syndrome: an inability to appropriately respond to damaged DNA? Experimental Hematology 2013 Aug; 41(8):665-674

Ravi D and Bishop AJR. RNA interference and functional genomics: From genes to discovery Icfai Journal of Biotechnology 2008 Sep; 2(3):52-62.

Reliene R, Bishop AJR and Schiestl RH.  Involvement of homologous recombination in carcinogenesis. Adv Genet 2007 Jan; 58:67-87. 

Bishop AJR and Schiestl RH.  Role of homologous recombination in carcinogenesis. Exp Mol Pathol2003 Apr; 74(2):94-105.

Bishop AJR and Schiestl R. Homologous recombination and its role in carcinogenesis Journal of Biotechnology and Biomedicine 2002; 2(2):75-85.

Bishop AJR and Schiestl R. Homologous recombination and its role in carcinogenesis Biochemica et Biophysica ACTA - Reviews on Cancer 2001; 147(3):109-121.

Bishop AJR and Schiestl R. Homologous recombination as a mechanism for genome rearrangements: environmental and genetic effects. Hum Mol Genet 2000; 9(16):2427-2434.

BOOK CHAPTERS:

Zanotto-Filho A, Bishop AJR and Moreira JCF.  Curcumin: A broad spectrum inhibitor targeting pathways relevant to glioblastomas In: Curcumin: Synthesis, Emerging Role in Pain Management and Health Implications. Nova Science Publishers, Inc.; 2014. p. 409-434.

Ravi D and Bishop AJR. Identification of genes required for damage survival using a cell based RNAi screen against the Drosophila genome In: DNA Repair Protocols, Third Edition; 2012

Brown AD, Karia B, Wiles AM and Bishop AJR. The intertwining of DNA damage response pathway components and homologous recombination repair In: Genetic Recombination Research Progress. Hauppauge, NY, USA: Nova Science Publishers, Inc.; 2008. p. 1 - 68.

Reliene R, Bishop AJR, Aubrecht J and Schiestl RH.  In vivo DNA deletion assay to detect environmental and genetic predisposition to cancer In: Alan Waldman. Genetic Recombination Reviews and Protocols. Totowa, NJ: Humana Press; 2004. p. 125 - 139.

PEER-REVIEWED CONFERENCE PAPERS:

Hsu A. F-S, Serpedin E, Hsiao T-H, Bishop AJR, Dougherty ER and Chen Y. Identifying Genes Associated with Chemotherapy Response in Ovarian Carcinomas Based on DNA Copy Number and Expression Profiles, IEEE Workshops on Genomic Signal Processing and Statistics 2011 (GENSIPS2011), Dec 4-6, 2011, San Antonio, TX. (Also published in a Special Issue of BMC Genomics, 2011 following additional reviews)

Doderer M, Anguiano Z, Suresh U, Ravi D, Bishop AJR and Chen Y. Multisource Biological Pathway Consolidation, IEEE Workshops on Genomic Signal Processing and Statistics 2011 (GENSIPS2011), Dec 4-6, 2011, San Antonio, TX. (Also published in a Special Issue of BMC Genomics, 2011 following additional reviews)

Grants

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