LIFE09200604007 Tabish - Homi Bhabha National Institute

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Abbreviations List of abbreviations AREG : Amphiregulin ARHGAP25 : Rho GTPase activating protein 25 ATM : Ataxia Telangiectasia Mutated BM : Buccal mucosa BPDE : Benzo[a]pyrene diol epoxide BRCA1 : Breast cancer 1 BRCA2 : Breast cancer 2 BSA : Bovine serum albumin CCND1 : Cyclin D1 CDC25C : Cell division cycle 25 CDKN1A : Cyclin dependent kinase inhibitor 1A CIA : Chloroform and iso-amyl alcohol CR2 : Complement receptor 2 DAPI : 4',6-diamidino-2-phenylindole DEPC : Diethylpyrocarbonate DI : DNA Index DMEM : Dulbecco‟s Modified Eagle Medium DMSO : Dimethyl Sulfoxide DTT : Dithiothreitol EBNA : Epstein- Barr Virus Nuclear Antigen EBV : Epstein Barr Virus EDTA : Ethylenediaminetetraacetic acid EPHX1 : Epoxide hydrolase 1 ERCC6 : Excision repair cross-complementing rodent repair deficiency, complementation group 6 EtBr : Ethidium Bromide EXO : Exonuclease 1 Fas : TNF receptor superfamily, member 6 FBS : Foetal Bovine Serum G Score : Genotype Score GAPDH : Glyceraldehyde-3-Phosphate Dehydrogenase GBS : Gingivo buccal Sulcus GNG12 : guanine nucleotide binding protein Gamma 12 GPX1 : Glutathione peroxidase 1 GSTM1 : Glutathione S transferase Mu 1 GSTP1 : Glutathione S transferase Pi 1 GSTT1 : Glutathione S transferase Theta 1 HLA : Human Leukocyte Antigen HMGA2 : High-mobility group AT-hook 2 HNSCC : Head and Neck Squamous Cell Carcinoma hOGG1 : Human 8-oxoguanine DNA N-glycosylase 1 HPV : Human Papilloma Virus ICAM1 : Intercellular Adhesion molecule 1 IFN : Interferon LCL : Lymphoblastoid Cell Line LFA1 : Lymphocyte Function Associated Antigen 1 MAFB : v-maf musculoaponeurotic fibrosarcoma oncogene homolog B MAPK10 : Mitogen-activated protein kinase 20
Abbreviations MOPS : 3-(N-morpholino)propanesulfonic acid MPN : Multiple Primary Neoplasma MPO : Myeloperoxidase p21 : Cyclin dependent kinase inhibitor 1A pATM : Phosphorylated Ataxia Telangiectasia Mutated PBL : Peripheral Blood Lymphocytes PBMC : Peripheral Blood Mononuclear Cells PBS : Phosphate buffer saline PBST : Phosphate buffer saline -Tween PCR : Polymerase chain reaction PD : Population Doubling PE : Phycoerythrin PHA : Phytohaemagglutinin PI : Phoshpotidyl Inositol RFLP : Restriction Fragment Length Polymorphism RMT : Retro Molar Trigone RPMI : Roswell Park Memorial <strong>Institute</strong> Medium RT : Room Temperature RT-PCR : Reverse transcription polymerase chain reaction S phase : Synthetic Phase SAP : Shrimp Alkaline Phosphatase SDS : Sodium Dodecyl Sulphate SMAD6 : SMAD family member 6 SNP : Single Nucleotide Polymorphism SPT : Second Primary Tumour SSC : Saline-Sodium Citrate SS II : Superscript II SULT1 : Sulpho Transferase I THF : Tetra Hydro Furan TMEFF1 : Transmembrane protein with EGF-like and two follistatin-like domains 1 TP53 : Tumour protein 53 TP53BP1 : Tumour protein 53 binding protein 1 UADT : Upper Aero Digestive Tract UTR : Untranslated region XP : Xeroderma Pigmentosum XPA : Xeroderma Pigmentosum Complimentation Group A XPD : Xeroderma Pigmentosum D XRCC1 : X-ray repair cross-complementing protein 1 XRCC3 : X-ray repair cross-complementing protein 3 ZNF429 : Zinc finger protein 429 21
Page 1: Genotype-Molecular Phenotype Correl
Page 7 and 8: CONTENTS Page No Synopsis 1 List of
Page 9 and 10: Synopsis
Page 11 and 12: Synopsis Genotype-Molecular Phenoty
Page 13 and 14: Synopsis Materials and Methods: 1.
Page 15 and 16: Synopsis loading control. PCR produ
Page 17 and 18: Synopsis 7.1 Percent cell death aft
Page 19 and 20: Synopsis slides were then dried and
Page 21 and 22: Synopsis range 41.77% - 90.95% at 5
Page 23 and 24: Synopsis 5. Genotyping of genes: Ge
Page 25 and 26: Synopsis G2/M arrest and delaying e
Page 27 and 28: Synopsis may have an important bear
Page 29: Synopsis References: 1. Bobba, R.;
Page 33 and 34: List of Figures Fig. 28: Percent re
Page 35 and 36: Chapter 1 Introduction
Page 37 and 38: Introduction In previous studies fr
Page 39 and 40: Introduction important carcinogenes
Page 41 and 42: Review of Literature The yet undeci
Page 43 and 44: Review of Literature Fig. 2: Incide
Page 45 and 46: Review of Literature sustained angi
Page 47 and 48: Review of Literature 2.6 Genotype p
Page 49 and 50: Review of Literature 2.7.2 Biologic
Page 51 and 52: Review of Literature Table 1: Steps
Page 53 and 54: Review of Literature future analysi
Page 55 and 56: Review of Literature Inefficient ce
Page 57 and 58: Review of Literature XRCC1 (X-ray r
Page 59 and 60: Review of Literature 2.9.2 Gene inv
Page 61 and 62: Review of Literature MPO gene polym
Page 63 and 64: Review of Literature important role
Page 65 and 66: Materials and Methods Source of che
Page 67 and 68: Materials and Methods Method: EBV-t
Page 69 and 70: Materials and Methods Immunophenoty
Page 71 and 72: Materials and Methods with 500 μl
Page 73 and 74: Materials and Methods cDNA it can b
Page 75 and 76: Materials and Methods Cobalt-60 iso
Page 77 and 78: Materials and Methods specific bind
Page 79 and 80: Materials and Methods h half of the
Page 81 and 82:
Materials and Methods phenol and th
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Materials and Methods 7. Filter ste
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Materials and Methods viz. EXO-SAP
Page 88 and 89:
Materials and Methods Table 2: List
Page 90 and 91:
Materials and Methods SMAD6 AREG HM
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Materials and Methods 3.9 Effect of
Page 94 and 95:
Materials and Methods fresh eppendo
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Materials and Methods Power SYBR Gr
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Results Objective 1 To generate EBV
Page 100 and 101:
Results Fig. 8: Frequency of second
Page 102 and 103:
Results Table 6: Demographics of he
Page 104 and 105:
Results Fig. 10: Cell population do
Page 106 and 107:
Results Fig. 12: Cell surface marke
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Results 4.1.5 Expression of ATM gen
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Results Objective 2 To compare the
Page 112 and 113:
Results Fig. 17: Standardization of
Page 114 and 115:
Results Fig. 19: Standardisation of
Page 116 and 117:
Results The cells were incubated fu
Page 118 and 119:
Results 4.2.3.1 Percent G2 delay af
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Results 4.2.3.2 Effect of BPDE expo
Page 122 and 123:
Results Fig. 29: Comparison of perc
Page 124 and 125:
Results Fig. 31: Percent cell death
Page 126 and 127:
Results normalization with baseline
Page 128 and 129:
Results 4.2.5.2 Real time PCR valid
Page 130 and 131:
Results homozygous wild-type, heter
Page 132 and 133:
Results Fig. 36b: Electrophoresis o
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Results Fig. 37a: Representative el
Page 136 and 137:
Results Table 13: Consolidated geno
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Results LCL Genes NAT2(1) NAT2(2) N
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Results Fig. 38: Distribution of Ge
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Results Fig. 39: Various combinatio
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Results Table 14: Genotype-phenotyp
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Discussion Introduction Squamous ce
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Discussion stimulated lymphocytes w
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Discussion H2AX is currently the mo
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Discussion or G2/M phase arrest. As
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Discussion differential expression
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Discussion DNA repair genes and MPN
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Chapter 6 Summary and Conclusions
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Summary and Conclusions Statistical
Page 162 and 163:
Bibliography 1. Dikshit, R.; Gupta,
Page 164 and 165:
Bibliography 43. Lei, D.; Sturgis,
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Bibliography 76. Fry, R. C.; Svenss
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Bibliography 115. Kote-Jarai, Z.; M
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Bibliography 149. Hashibe, M.; Bren
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Bibliography 183. Bergamaschi, D.;
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Bibliography 216. Bondy, M. L.; Wan
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Indian J Med Res 135, June 2012, pp
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822 INDIAN J MED RES, JUNE 2012 mar
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824 INDIAN J MED RES, JUNE 2012 (h)
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826 INDIAN J MED RES, JUNE 2012 Tab
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828 INDIAN J MED RES, JUNE 2012 lik
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CASE REPORT Eben L. Rosenthal, MD,
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FIGURE 2. Chromosomal breakage anal
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FA along with ataxia telangiectasia
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LIFE09200604007 Tabish - Homi Bhabha National Institute

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