Skip to main content
Top
Published in: BMC Cancer 1/2004

Open Access 01-12-2004 | Research article

Genome wide in silico SNP-tumor association analysis

Authors: Ping Qiu, Luquan Wang, Mitch Kostich, Wei Ding, Jason S Simon, Jonathan R Greene

Published in: BMC Cancer | Issue 1/2004

Login to get access

Abstract

Background

Carcinogenesis occurs, at least in part, due to the accumulation of mutations in critical genes that control the mechanisms of cell proliferation, differentiation and death. Publicly accessible databases contain millions of expressed sequence tag (EST) and single nucleotide polymorphism (SNP) records, which have the potential to assist in the identification of SNPs overrepresented in tumor tissue.

Methods

An in silico SNP-tumor association study was performed utilizing tissue library and SNP information available in NCBI's dbEST (release 092002) and dbSNP (build 106).

Results

A total of 4865 SNPs were identified which were present at higher allele frequencies in tumor compared to normal tissues. A subset of 327 (6.7%) SNPs induce amino acid changes to the protein coding sequences. This approach identified several SNPs which have been previously associated with carcinogenesis, as well as a number of SNPs that now warrant further investigation

Conclusions

This novel in silico approach can assist in prioritization of genes and SNPs in the effort to elucidate the genetic mechanisms underlying the development of cancer.
Appendix
Available only for authorised users
Literature
1.
go back to reference Schuler G: Pieces of the puzzle: expressed sequence tags and the catalog of human genes. J Mol Med. 1997, 75: 694-698. 10.1007/s001090050155.CrossRefPubMed Schuler G: Pieces of the puzzle: expressed sequence tags and the catalog of human genes. J Mol Med. 1997, 75: 694-698. 10.1007/s001090050155.CrossRefPubMed
2.
go back to reference Kawai J, Shinagawa A, Shibata K, Yoshino M, Itoh M, Ishii Y, Arakawa T, Hara A, Fukunishi Y, Konno H, Adachi J, Fukuda S, Aizawa K, Izawa M, Nishi K, Kiyosawa H, Kondo S, Yamanaka I, Saito T, Okazaki Y, Gojobori T, Bono H, Kasukawa T, Saito R, Kadota K, Matsuda H, Ashburner M, Batalov S, Casavant T, Fleischmann W, Gaasterland T, Gissi C, King B, Kochiwa H, Kuehl P, Lewis S, Matsuo Y, Nikaido I, Pesole G, Quackenbush J, Schriml LM, Staubli F, Suzuki R, Tomita M, Wagner L, Washio T, Sakai K, Okido T, Furuno M, Aono H, Baldarelli R, Barsh G, Blake J, Boffelli D, Bojunga N, Carninci P, de Bonaldo MF, Brownstein MJ, Bult C, Fletcher C, Fujita M, Gariboldi M, Gustincich S, Hill D, Hofmann M, Hume DA, Kamiya M, Lee NH, Lyons P, Marchionni L, Mashima J, Mazzarelli J, Mombaerts P, Nordone P, Ring B, Ringwald M, Rodriguez I, Sakamoto N, Sasaki H, Sato K, Schonbach C, Seya T, Shibata Y, Storch KF, Suzuki H, Toyo-oka K, Wang KH, Weitz C, Whittaker C, Wilming L, Wynshaw-Boris A, Yoshida K, Hasegawa Y, Kawaji H, Kohtsuki S, Hayashizaki Y, RIKEN Genome Exploration Research Group Phase II Team and the FANTOM Consortium: Functional annotation of a full-length mouse cDNA collection. Nature. 2001, 409: 685-690. 10.1038/35055500.CrossRefPubMed Kawai J, Shinagawa A, Shibata K, Yoshino M, Itoh M, Ishii Y, Arakawa T, Hara A, Fukunishi Y, Konno H, Adachi J, Fukuda S, Aizawa K, Izawa M, Nishi K, Kiyosawa H, Kondo S, Yamanaka I, Saito T, Okazaki Y, Gojobori T, Bono H, Kasukawa T, Saito R, Kadota K, Matsuda H, Ashburner M, Batalov S, Casavant T, Fleischmann W, Gaasterland T, Gissi C, King B, Kochiwa H, Kuehl P, Lewis S, Matsuo Y, Nikaido I, Pesole G, Quackenbush J, Schriml LM, Staubli F, Suzuki R, Tomita M, Wagner L, Washio T, Sakai K, Okido T, Furuno M, Aono H, Baldarelli R, Barsh G, Blake J, Boffelli D, Bojunga N, Carninci P, de Bonaldo MF, Brownstein MJ, Bult C, Fletcher C, Fujita M, Gariboldi M, Gustincich S, Hill D, Hofmann M, Hume DA, Kamiya M, Lee NH, Lyons P, Marchionni L, Mashima J, Mazzarelli J, Mombaerts P, Nordone P, Ring B, Ringwald M, Rodriguez I, Sakamoto N, Sasaki H, Sato K, Schonbach C, Seya T, Shibata Y, Storch KF, Suzuki H, Toyo-oka K, Wang KH, Weitz C, Whittaker C, Wilming L, Wynshaw-Boris A, Yoshida K, Hasegawa Y, Kawaji H, Kohtsuki S, Hayashizaki Y, RIKEN Genome Exploration Research Group Phase II Team and the FANTOM Consortium: Functional annotation of a full-length mouse cDNA collection. Nature. 2001, 409: 685-690. 10.1038/35055500.CrossRefPubMed
3.
go back to reference Irizarry K, Kustanovich V, Li C, Brown N, Nelson S, Wong W, Lee CJ: Genome-wide analysis of single-nucleotide polymorphisms in human expressed sequences. Nat Genet. 2000, 26: 233-236. 10.1038/79981.CrossRefPubMed Irizarry K, Kustanovich V, Li C, Brown N, Nelson S, Wong W, Lee CJ: Genome-wide analysis of single-nucleotide polymorphisms in human expressed sequences. Nat Genet. 2000, 26: 233-236. 10.1038/79981.CrossRefPubMed
4.
go back to reference Schmid KJ, Sorensen TR, Stracke R, Torjek O, Altmann T, Mitchell-Olds T, Weisshaar B: Large-scale identification and analysis of genome-wide single-nucleotide polymorphisms for mapping in Arabidopsis thaliana. Genome Res. 2003, 13: 1250-1257. 10.1101/gr.728603.CrossRefPubMedPubMedCentral Schmid KJ, Sorensen TR, Stracke R, Torjek O, Altmann T, Mitchell-Olds T, Weisshaar B: Large-scale identification and analysis of genome-wide single-nucleotide polymorphisms for mapping in Arabidopsis thaliana. Genome Res. 2003, 13: 1250-1257. 10.1101/gr.728603.CrossRefPubMedPubMedCentral
5.
go back to reference Barker G, Batley J, O' Sullivan H, Edwards KJ, Edwards D: Redundancy based detection of sequence polymorphisms in expressed sequence tag data using autoSNP. Bioinformatics. 2003, 19: 421-422. 10.1093/bioinformatics/btf881.CrossRefPubMed Barker G, Batley J, O' Sullivan H, Edwards KJ, Edwards D: Redundancy based detection of sequence polymorphisms in expressed sequence tag data using autoSNP. Bioinformatics. 2003, 19: 421-422. 10.1093/bioinformatics/btf881.CrossRefPubMed
7.
go back to reference Benbow L, Wang L, Laverty M, Liu S, Qiu P, Bond RW, Gustafson E, Hedrick JA, Kostich M, Greene JR, Wang L: A reference database for tumor-related genes co-expressed with interleukin-8 using genome-scale in silico analysis. BMC Genomics. 2002, 3: 29-10.1186/1471-2164-3-29.CrossRefPubMedPubMedCentral Benbow L, Wang L, Laverty M, Liu S, Qiu P, Bond RW, Gustafson E, Hedrick JA, Kostich M, Greene JR, Wang L: A reference database for tumor-related genes co-expressed with interleukin-8 using genome-scale in silico analysis. BMC Genomics. 2002, 3: 29-10.1186/1471-2164-3-29.CrossRefPubMedPubMedCentral
8.
go back to reference Lander ES: The new genomics: Global views of biology. Science. 1996, 274: 536-539. 10.1126/science.274.5287.536.CrossRefPubMed Lander ES: The new genomics: Global views of biology. Science. 1996, 274: 536-539. 10.1126/science.274.5287.536.CrossRefPubMed
9.
go back to reference Collins FS, Guyer MS, Chakravarti A: Variations on a theme: Cataloging human DNA sequence variation. Science. 1997, 278: 1580-1581. 10.1126/science.278.5343.1580.CrossRefPubMed Collins FS, Guyer MS, Chakravarti A: Variations on a theme: Cataloging human DNA sequence variation. Science. 1997, 278: 1580-1581. 10.1126/science.278.5343.1580.CrossRefPubMed
10.
go back to reference Chakravarti A: Population genetics – Making sense out of sequence. Nat Genet. 1999, 21: 56-60. 10.1038/4482.CrossRefPubMed Chakravarti A: Population genetics – Making sense out of sequence. Nat Genet. 1999, 21: 56-60. 10.1038/4482.CrossRefPubMed
11.
go back to reference Ueda H, Howson JM, Esposito L, Heward J, Snook H, Chamberlain G, Rainbow DB, Hunter KM, Smith AN, Di Genova G, Herr MH, Dahlman I, Payne F, Smyth D, Lowe C, Twells RC, Howlett S, Healy B, Nutland S, Rance HE, Everett V, Smink LJ, Lam AC, Cordell HJ, Walker NM, Bordin C, Hulme J, Motzo C, Cucca F, Hess JF, Metzker ML, Rogers J, Gregory S, Allahabadia A, Nithiyananthan R, Tuomilehto-Wolf E, Tuomilehto J, Bingley P, Gillespie KM, Undlien DE, Ronningen KS, Guja C, Ionescu-Tirgoviste C, Savage DA, Maxwell AP, Carson DJ, Patterson CC, Franklyn JA, Clayton DG, Peterson LB, Wicker LS, Todd JA, Gough SC: Association of the T-cell regulatory gene CTLA4 with susceptibility to autoimmune disease. Nature. 2003, 423: 506-511. 10.1038/nature01621.CrossRefPubMed Ueda H, Howson JM, Esposito L, Heward J, Snook H, Chamberlain G, Rainbow DB, Hunter KM, Smith AN, Di Genova G, Herr MH, Dahlman I, Payne F, Smyth D, Lowe C, Twells RC, Howlett S, Healy B, Nutland S, Rance HE, Everett V, Smink LJ, Lam AC, Cordell HJ, Walker NM, Bordin C, Hulme J, Motzo C, Cucca F, Hess JF, Metzker ML, Rogers J, Gregory S, Allahabadia A, Nithiyananthan R, Tuomilehto-Wolf E, Tuomilehto J, Bingley P, Gillespie KM, Undlien DE, Ronningen KS, Guja C, Ionescu-Tirgoviste C, Savage DA, Maxwell AP, Carson DJ, Patterson CC, Franklyn JA, Clayton DG, Peterson LB, Wicker LS, Todd JA, Gough SC: Association of the T-cell regulatory gene CTLA4 with susceptibility to autoimmune disease. Nature. 2003, 423: 506-511. 10.1038/nature01621.CrossRefPubMed
12.
go back to reference Chanock S: Candidate genes and single nucleotide polymorphisms (SNPs) in the study of human disease. Dis Markers. 2001, 17: 89-98.CrossRefPubMed Chanock S: Candidate genes and single nucleotide polymorphisms (SNPs) in the study of human disease. Dis Markers. 2001, 17: 89-98.CrossRefPubMed
13.
go back to reference Wang DG, Fan JB, Siao CJ, Berno A, Young P, Sapolsky R, Ghandour G, Perkins N, Winchester E, Spencer J: Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome. Science. 1998, 280: 1077-1082. 10.1126/science.280.5366.1077.CrossRefPubMed Wang DG, Fan JB, Siao CJ, Berno A, Young P, Sapolsky R, Ghandour G, Perkins N, Winchester E, Spencer J: Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome. Science. 1998, 280: 1077-1082. 10.1126/science.280.5366.1077.CrossRefPubMed
14.
15.
go back to reference Goddard KA, Hopkins PJ, Hall JM, Witte JS: Linkage disequilibrium and allele-frequency distributions for 114 single-nucleotide polymorphisms in five populations. Am J Hum Genet. 2000, 66: 216-234. 10.1086/302727.CrossRefPubMedPubMedCentral Goddard KA, Hopkins PJ, Hall JM, Witte JS: Linkage disequilibrium and allele-frequency distributions for 114 single-nucleotide polymorphisms in five populations. Am J Hum Genet. 2000, 66: 216-234. 10.1086/302727.CrossRefPubMedPubMedCentral
16.
go back to reference Ober C, Leavitt SA, Tsalenko A, Howard TD, Hoki DM, Daniel R, Newman DL, Wu X, Parry R, Lester LA: Variation in the interleukin 4-receptor gene confers susceptibility to asthma and atopy in ethnically diverse populations. Am J Hum Genet. 2000, 66: 517-526. 10.1086/302781.CrossRefPubMedPubMedCentral Ober C, Leavitt SA, Tsalenko A, Howard TD, Hoki DM, Daniel R, Newman DL, Wu X, Parry R, Lester LA: Variation in the interleukin 4-receptor gene confers susceptibility to asthma and atopy in ethnically diverse populations. Am J Hum Genet. 2000, 66: 517-526. 10.1086/302781.CrossRefPubMedPubMedCentral
17.
go back to reference Lai E, Riley J, Purvis I, Roses A: A 4-Mb high-density single nucleotide polymorphism-based map around human APOE. Genomics. 1998, 54: 31-38. 10.1006/geno.1998.5581.CrossRefPubMed Lai E, Riley J, Purvis I, Roses A: A 4-Mb high-density single nucleotide polymorphism-based map around human APOE. Genomics. 1998, 54: 31-38. 10.1006/geno.1998.5581.CrossRefPubMed
18.
go back to reference Martin ER, Gilbert JR, Lai EH, Riley J, Rogala AR, Slotterbeck BD, Sipe CA, Grubber JM, Warren LL, Conneally PM: Analysis of association at single nucleotide polymorphisms in the APOE region. Genomics. 2000, 63: 7-12. 10.1006/geno.1999.6057.CrossRefPubMed Martin ER, Gilbert JR, Lai EH, Riley J, Rogala AR, Slotterbeck BD, Sipe CA, Grubber JM, Warren LL, Conneally PM: Analysis of association at single nucleotide polymorphisms in the APOE region. Genomics. 2000, 63: 7-12. 10.1006/geno.1999.6057.CrossRefPubMed
19.
go back to reference Davies H, Bignell GR, Cox C, Stephens P, Edkins S, Clegg S, Teague J, Woffendin H, Garnett MJ, Bottomley W, Davis N, Dicks E, Ewing R, Floyd Y, Gray K, Hall S, Hawes R, Hughes J, Kosmidou V, Menzies A, Mould C, Parker A, Stevens C, Watt S, Hooper S, Wilson R, Jayatilake H, Gusterson BA, Cooper C, Shipley J, Hargrave D, Pritchard-Jones K, Maitland N, Chenevix-Trench G, Riggins GJ, Bigner DD, Palmieri G, Cossu A, Flanagan A, Nicholson A, Ho JW, Leung SY, Yuen ST, Weber BL, Seigler HF, Darrow TL, Paterson H, Marais R, Marshall CJ, Wooster R, Stratton MR, Futreal PA: Mutations of the BRAF gene in human cancer. Nature. 2002, 417: 949-954. 10.1038/nature00766.CrossRefPubMed Davies H, Bignell GR, Cox C, Stephens P, Edkins S, Clegg S, Teague J, Woffendin H, Garnett MJ, Bottomley W, Davis N, Dicks E, Ewing R, Floyd Y, Gray K, Hall S, Hawes R, Hughes J, Kosmidou V, Menzies A, Mould C, Parker A, Stevens C, Watt S, Hooper S, Wilson R, Jayatilake H, Gusterson BA, Cooper C, Shipley J, Hargrave D, Pritchard-Jones K, Maitland N, Chenevix-Trench G, Riggins GJ, Bigner DD, Palmieri G, Cossu A, Flanagan A, Nicholson A, Ho JW, Leung SY, Yuen ST, Weber BL, Seigler HF, Darrow TL, Paterson H, Marais R, Marshall CJ, Wooster R, Stratton MR, Futreal PA: Mutations of the BRAF gene in human cancer. Nature. 2002, 417: 949-954. 10.1038/nature00766.CrossRefPubMed
20.
go back to reference Long AD, Langley CH: The power of association studies to detect the contribution of candidate genetic loci to variation in complex traits. Genome Res. 1999, 9: 720-731.PubMedPubMedCentral Long AD, Langley CH: The power of association studies to detect the contribution of candidate genetic loci to variation in complex traits. Genome Res. 1999, 9: 720-731.PubMedPubMedCentral
21.
go back to reference Risch N, Merikangas K: The future of genetic studies of complex human diseases. Science. 1996, 273: 1516-1517.CrossRefPubMed Risch N, Merikangas K: The future of genetic studies of complex human diseases. Science. 1996, 273: 1516-1517.CrossRefPubMed
22.
go back to reference Taylor JG, Choi EH, Foster CB, Chanock SJ: Using genetic variation to study human disease. Trends Mol Med. 2001, 7: 507-12. 10.1016/S1471-4914(01)02183-9.CrossRefPubMed Taylor JG, Choi EH, Foster CB, Chanock SJ: Using genetic variation to study human disease. Trends Mol Med. 2001, 7: 507-12. 10.1016/S1471-4914(01)02183-9.CrossRefPubMed
24.
go back to reference Hemminki K, Mutanen P: Genetic epidemiology of multistage carcinogenesis. Mutat Res. 2001, 473: 11-21. 10.1016/S0027-5107(00)00162-7.CrossRefPubMed Hemminki K, Mutanen P: Genetic epidemiology of multistage carcinogenesis. Mutat Res. 2001, 473: 11-21. 10.1016/S0027-5107(00)00162-7.CrossRefPubMed
25.
go back to reference Ameyaw MM, Tayeb M, Thornton N, Folayan G, Tariq M, Mobarek A, Evans DA, Ofori-Adjei D, McLead HL: Ethnic variation in the HER-2 codon 655 genetic polymorphism previously associated with breast cancer. J Hum Genet. 2002, 47: 172-175. 10.1007/s100380200019.CrossRefPubMed Ameyaw MM, Tayeb M, Thornton N, Folayan G, Tariq M, Mobarek A, Evans DA, Ofori-Adjei D, McLead HL: Ethnic variation in the HER-2 codon 655 genetic polymorphism previously associated with breast cancer. J Hum Genet. 2002, 47: 172-175. 10.1007/s100380200019.CrossRefPubMed
26.
go back to reference Mimori K, Inoue H, Shiraishi T, Ueo H, Mafune K, Tanaka Y, Mori M: A Single-Nucleotide Polymorphism of SMARCB1 in Human Breast Cancers. Genomics. 2002, 80: 254-258. 10.1006/geno.2002.6829.CrossRefPubMed Mimori K, Inoue H, Shiraishi T, Ueo H, Mafune K, Tanaka Y, Mori M: A Single-Nucleotide Polymorphism of SMARCB1 in Human Breast Cancers. Genomics. 2002, 80: 254-258. 10.1006/geno.2002.6829.CrossRefPubMed
27.
go back to reference Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol. 1990, 215: 403-410. 10.1006/jmbi.1990.9999.CrossRefPubMed Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol. 1990, 215: 403-410. 10.1006/jmbi.1990.9999.CrossRefPubMed
28.
go back to reference Reszka E, Wasowicz W: Significance of genetic polymorphisms in glutathione S-transferase multigene family and lung cancer risk. Int J Occup Med Environ Health. 2001, 14: 99-113.PubMed Reszka E, Wasowicz W: Significance of genetic polymorphisms in glutathione S-transferase multigene family and lung cancer risk. Int J Occup Med Environ Health. 2001, 14: 99-113.PubMed
29.
go back to reference Hoque MO, Lee CC, Cairns P, Schoenberg M, Sidransky D: Genome-wide genetic characterization of bladder cancer: a comparison of high-density single-nucleotide polymorphism arrays and PCR-based microsatellite analysis. Cancer Res. 2003, 63: 2216-2222.PubMed Hoque MO, Lee CC, Cairns P, Schoenberg M, Sidransky D: Genome-wide genetic characterization of bladder cancer: a comparison of high-density single-nucleotide polymorphism arrays and PCR-based microsatellite analysis. Cancer Res. 2003, 63: 2216-2222.PubMed
30.
go back to reference Dumur CI, Dechsukhum C, Ware JL, Cofield SS, Best AM, Wilkinson DS, Garrett CT, Ferreira-Gonzalez A: Genome-wide detection of LOH in prostate cancer using human SNP microarray technology. Genomics. 2003, 81: 260-269. 10.1016/S0888-7543(03)00020-X.CrossRefPubMed Dumur CI, Dechsukhum C, Ware JL, Cofield SS, Best AM, Wilkinson DS, Garrett CT, Ferreira-Gonzalez A: Genome-wide detection of LOH in prostate cancer using human SNP microarray technology. Genomics. 2003, 81: 260-269. 10.1016/S0888-7543(03)00020-X.CrossRefPubMed
31.
go back to reference Ferrone S, Marincola FM: Loss of HLA class I antigens by melanoma cells: molecular mechanisms, functional significance and clinical relevance. Immunol Today. 1995, 16: 487-494. 10.1016/0167-5699(95)80033-6.CrossRefPubMed Ferrone S, Marincola FM: Loss of HLA class I antigens by melanoma cells: molecular mechanisms, functional significance and clinical relevance. Immunol Today. 1995, 16: 487-494. 10.1016/0167-5699(95)80033-6.CrossRefPubMed
32.
go back to reference Garrido F, Ruiz-Cabello F, Cabrera T, Perez-Villar JJ, Lopez-Botet M, Duggan-Keen M, Stern PL: Implications for immunosurveillance of altered HLA class I phenotypes in human tumours. Immunol Today. 1997, 18: 89-95. 10.1016/S0167-5699(96)10075-X.CrossRefPubMed Garrido F, Ruiz-Cabello F, Cabrera T, Perez-Villar JJ, Lopez-Botet M, Duggan-Keen M, Stern PL: Implications for immunosurveillance of altered HLA class I phenotypes in human tumours. Immunol Today. 1997, 18: 89-95. 10.1016/S0167-5699(96)10075-X.CrossRefPubMed
33.
go back to reference Stucker I, Hirvonen A, de Waziers I, Cabelguenne A, Mitrunen K, Cenee S, Koum-Besson E, Hemon D, Beaune P, Loriot MA: Genetic polymorphisms of glutathione S-transferases as modulators of lung cancer susceptibility. Carcinogenesis. 2002, 23: 1475-1481. 10.1093/carcin/23.9.1475.CrossRefPubMed Stucker I, Hirvonen A, de Waziers I, Cabelguenne A, Mitrunen K, Cenee S, Koum-Besson E, Hemon D, Beaune P, Loriot MA: Genetic polymorphisms of glutathione S-transferases as modulators of lung cancer susceptibility. Carcinogenesis. 2002, 23: 1475-1481. 10.1093/carcin/23.9.1475.CrossRefPubMed
34.
go back to reference Blackburn AC, Tzeng HF, Anders MW, Board PG: Discovery of a functional polymorphism in human glutathione transferase zeta by expressed sequence tag database analysis. Pharmacogenetics. 2000, 10: 49-57. 10.1097/00008571-200002000-00007.CrossRefPubMed Blackburn AC, Tzeng HF, Anders MW, Board PG: Discovery of a functional polymorphism in human glutathione transferase zeta by expressed sequence tag database analysis. Pharmacogenetics. 2000, 10: 49-57. 10.1097/00008571-200002000-00007.CrossRefPubMed
35.
go back to reference Loyer P, Trembley JH, Lahti JM, Kidd VJ: The RNP protein, RNPS1, associates with specific isoforms of the p34cdc2-related PITSLRE protein kinase in vivo. J Cell Sci. 1998, 111: 1495-1506.PubMed Loyer P, Trembley JH, Lahti JM, Kidd VJ: The RNP protein, RNPS1, associates with specific isoforms of the p34cdc2-related PITSLRE protein kinase in vivo. J Cell Sci. 1998, 111: 1495-1506.PubMed
36.
go back to reference Beyaert R, Kidd VJ, Cornelis S, Van de Craen M, Denecker G, Lahti JM, Gururajan R, Vandenabeele P, Fiers W: Cleavage of PITSLRE kinases by ICE/CASP-1 and CPP32/CASP-3 during apoptosis induced by tumor necrosis factor. J Biol Chem. 1997, 272: 11694-11697. 10.1074/jbc.272.18.11694.CrossRefPubMed Beyaert R, Kidd VJ, Cornelis S, Van de Craen M, Denecker G, Lahti JM, Gururajan R, Vandenabeele P, Fiers W: Cleavage of PITSLRE kinases by ICE/CASP-1 and CPP32/CASP-3 during apoptosis induced by tumor necrosis factor. J Biol Chem. 1997, 272: 11694-11697. 10.1074/jbc.272.18.11694.CrossRefPubMed
37.
go back to reference Tang D, Gururajan R, Kidd V: Phosphorylation of PITSLRE p110 Isoforms Accompanies Their Processing by Caspases during Fas-mediated. Cell Death J Biol Chem. 1998, 273: 16601-16607. 10.1074/jbc.273.26.16601.PubMed Tang D, Gururajan R, Kidd V: Phosphorylation of PITSLRE p110 Isoforms Accompanies Their Processing by Caspases during Fas-mediated. Cell Death J Biol Chem. 1998, 273: 16601-16607. 10.1074/jbc.273.26.16601.PubMed
38.
go back to reference Feng Y, Shi J, Goldstein AM, Tucker MA, Nelson MA: Analysis of mutations and identification of several polymorphisms in the putative promoter region of the P34CDC2-related CDC2L1 gene located at 1P36 in melanoma cell lines and melanoma families. Int J Cancer. 2002, 99: 834-838. 10.1002/ijc.10422.CrossRefPubMed Feng Y, Shi J, Goldstein AM, Tucker MA, Nelson MA: Analysis of mutations and identification of several polymorphisms in the putative promoter region of the P34CDC2-related CDC2L1 gene located at 1P36 in melanoma cell lines and melanoma families. Int J Cancer. 2002, 99: 834-838. 10.1002/ijc.10422.CrossRefPubMed
39.
go back to reference Beltinger C, Fulda S, Kammertoens T, Uckert W, Debatin K: Mitochondrial Amplification of Death Signals Determines Thymidine Kinase/Ganciclovir-triggered Activation of Apoptosis. Cancer Res. 2000, 60: 3212-3217.PubMed Beltinger C, Fulda S, Kammertoens T, Uckert W, Debatin K: Mitochondrial Amplification of Death Signals Determines Thymidine Kinase/Ganciclovir-triggered Activation of Apoptosis. Cancer Res. 2000, 60: 3212-3217.PubMed
40.
go back to reference Sanchez-Alcazar JA, Khodjakov A, Schneider E: Anticancer drugs induce increased mitochondrial cytochrome c expression that precedes cell death. Cancer Res. 2001, 61: 1038-1044.PubMed Sanchez-Alcazar JA, Khodjakov A, Schneider E: Anticancer drugs induce increased mitochondrial cytochrome c expression that precedes cell death. Cancer Res. 2001, 61: 1038-1044.PubMed
Metadata
Title
Genome wide in silico SNP-tumor association analysis
Authors
Ping Qiu
Luquan Wang
Mitch Kostich
Wei Ding
Jason S Simon
Jonathan R Greene
Publication date
01-12-2004
Publisher
BioMed Central
Published in
BMC Cancer / Issue 1/2004
Electronic ISSN: 1471-2407
DOI
https://doi.org/10.1186/1471-2407-4-4

Other articles of this Issue 1/2004

BMC Cancer 1/2004 Go to the issue
Webinar | 19-02-2024 | 17:30 (CET)

Keynote webinar | Spotlight on antibody–drug conjugates in cancer

Antibody–drug conjugates (ADCs) are novel agents that have shown promise across multiple tumor types. Explore the current landscape of ADCs in breast and lung cancer with our experts, and gain insights into the mechanism of action, key clinical trials data, existing challenges, and future directions.

Dr. Véronique Diéras
Prof. Fabrice Barlesi
Developed by: Springer Medicine