Article Title: Association of HPV with Genetic and Epigenetic
Article Title: Association of HPV with Genetic and Epigenetic Alterations in Colorectal Adenocarcinoma from Indian population Journal name: Tumor Biology Ruhina S Laskar, Fazlur R Talukdar, Javed H Choudhury, Seram Anil Singh, Sharbadeb Kundu, Bishal Dhar, Rosy Mondal and Sankar Kumar Ghosh # Molecular Medicine Laboratory, Department of Biotechnology, Assam University, Silchar, Assam, India # Corresponding author: Prof. Sankar Kumar Ghosh Department of Biotechnology, Assam University, Silchar 788011, Assam, India Phone-91 9435372338, Fax- 91 3842 270802 e-mail: [email protected] List of primers used in the study Primer name HPV GP5+ -F HPV GP6+ -R HPV My09-F HPV My11-R HPV16-1F HPV16-1R HPV16-2F HPV16-2R HPV18-1F HPV18-1R HPV18-2F HPV18-2R BAT 25-F BAT25-R BAT 26-F BAT26-R BRAF-F BRAF-R KRAS-F KRAS-R P53-E7-F P53-E7-R P53-E8-R P53-E8-R P16-MF P16-MR P16-UF P16-UR hMLH1 MF hMLH1 MR hMLH1 UF hMLH1 UR MINT1 MF MINT1 MR MINT1 UF MINT1 UR MINT2 MF MINT2 MR MINT2 UF MINT2 UR MINT31 MF MINT31 MR MINT31 UF MINT31 UR Ecad-MF Ecad-MR Primer sequence TTT GTT ACT GTG GTA GAT ACT AC GAA AAA TAA ACT GTA AAT CAT ATT C CGT CCM ARR GGA WAC TGA TC GCM CAG GGW CAT AAY AAT GG GCCTGTGTAGGTGTTGAGG TGGATTTACTGCAACATTGG ATGACTTTGCTTTTCGGGATTTAT GCATGATTACAGCTGGGTTTCTC GTGGACCAGCAAATACAG TCCAACACGTGGTCGTTGCA AACCGAGCACGACAGGAACG GGATGCACACCACGGACACA TCG CCT CCA AGA ATG TAA GT TCT GCA TTT TAA CTA TGG CTC TGA CTA CTT TTG ACT TCA GCC AAC CAT TCA ACA TTT TTA ACC AAACTCTTCATAATGCTTGCTCTG GGCCAAAAATTTAATCAGTGGA GGTGGAGTATTTGATAGTGTA GGTCCTGCACCAGTAATATGC GGAATTCTCCTAGGTTGGCTCTGAC GGAATTCCAAGTGGCTCCTGACCTGGA GGAATTCCCTATCCTGAGTAGTGGTAA GGAATTCCTGCTTGCTTACCTCG TTA TTA GAG GGT GGG GCG GATCGC GAC CCC GAA CCG CGA CCG TAA TTA TTA GAG GGT GGG GTG GATTGT CAA CCC CAA ACC ACA ACC ATA A GATAGC GAT TTT TAA CGC TCT ATA AAT TAC TAA ATC TCT TCG AGAGTG GAT AGT GAT TTT TAA TGT ACT CTA TAA ATT ACT AAA TCT CTT CA AAT TTT TTT ATA TAT ATT TTC GAA GC AAA AAC CTC AAC CCC GCG AAT TTT TTT ATA TAT ATT TTT GAA GTG T AAC AAA AAA CCT CAA CCC CAC A TTG TTA AAG TGT TGAG TTC GTC AAT AAC GAC GAT TCC GTA CG GAT TTT GTT AAA GTG TTG AGT TTG TT CAA AAT AAT AAC AAC AAT TCC ATA CA TGT TGG GGA AGT GTT TTT CGG C CGA AAA CGA AAC GCC GCG TAG ATG TTG GGG AAG TGT TTT TTG GT TAA ATA CCC AAA AAC AAA ACA CCA CA TTA GGT TAG AGG GTT ATC GCG T TAA CTA AAA ATT CAC CTA CCG AC Ecad-UF Ecad-UR DAPK-MF DAPK-MR TAA TTT TAG GTT AGA GGG TTA TTG T CAC AAC CAA TCA ACA ACA CA GGA TAG TCG GAT CGA GTT AAC GTC CCC TCC CAA ACG CCG A DAPK-UF DAPK-UR GGA GGA TAG TTG GAT TGA GTT AAT GTT CAA ATC CCT CCC AAA CAC CAA RASSF1-MF RASSF1-MR TTT TTC CAT TTC GCG TCT CT CGT TTT TGC CCT TTC TTC GC RASSF1-UF RASSF1-UR TCACCCATTTTTCCATTTCTCT CTT TTT TTC CCT TTC TTC TCT T GSTP1-MF GSTP1-MR GAA GTT GGC GAG GTC GAG TTT C ACC CGC CAC AAC CCG AAA AAA CG GSTP1-UF GSTM1-UR GGG AAG TTG GTG AGG TTG AGT TTT CAA CCC ACC ACA ACC CAA AAA ACA BRCA MF BRCA1-MR TCGTGGTAACGGAAAAGCGC AACGAACTCACGCCGCGCAA BRCA UF BRCA1-UR TTGAGAGGTTGTTGTTTAGTGG AACAAACTCACACCACACAA Gene/loci Annealing Temp(0C) HPV L1 44 HPV L1 47 HPV16-L1 54 HPV16-E6E7 56 HPV18-E1 54 HPV18-E7 55 BAT25 55 BAT26 54 BRAF exon15 55 KRAS exon 1 56 P53 exon7 59 P53 exon 8 58 P16 60 65 MLH1 56 58 MINT1 56 55 MINT2 58 56 MINT31 58 59 E-Cadherin 57 DAPK 53 64 64 RASSF1 60 60 GSTP1 65 65 BRCA1 66 54 F= forward, R=Reverse, UF=Unmethylated Forward, UM=Unmethylated Reverse, MF=Methylated Forward, MR=Methylated Reverse
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