By Sarah J. Wheelan (auth.), Srinivasan Yegnasubramanian, William B. Isaacs (eds.)
A convergence of developments in molecular biology, engineering, laptop technological know-how, biostatistics and different disciplines has made attainable the improvement of applied sciences facilitating the vastly parallel research of the complicated organic phenomena using melanoma initiation and development. Such applied sciences contain DNA microarrays, subsequent iteration sequencing, proteomics applied sciences, and tissue microarrays. so as to safely harness those applied sciences to imaginatively decipher those complicated organic approaches, scientists should have an knowing of the underlying expertise, be capable to adapt those applied sciences with molecular biology lab ways, after which be poised to successfully strategy and interpret the super excessive dimensional and complicated info units which are generated by way of those applied sciences. the first goal of this quantity is to assist bridge the space among molecular biologists and melanoma researchers and the bioinformatics and computational biology researchers through delivering an outline of those applied sciences to people who should not but conversant in them.
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Fragment libraries are extremely useful for analysis of single nucleotide substitutions/variations. Each fragment in the library produces a single read and multiple overlapping fragments are sequenced for each position in the genome. A coverage of >30× is usually needed to confidently decipher true variation from sequencing errors and for robustly distinguishing homozygous and heterozygous SNPs. Additionally, fragment libraries can also provide some information on genomic copy number. g. Xie and Tammi 2009).
Gudmundsson J, Sulem P, Manolescu A, Amundadottir LT, Gudbjartsson D, Helgason A, Rafnar T, Bergthorsson JT, Agnarsson BA, Baker A, Sigurdsson A, Benediktsdottir KR, Jakobsdottir M, Xu J, Blondal T, Kostic J, Sun J, Ghosh S, Stacey SN, Mouy M, Saemundsdottir J, Backman VM, Kristjansson K, Tres A, Partin AW, Albers-Akkers MT, Godino-Ivan Marcos J, Walsh PC, Swinkels DW, Navarrete S, Isaacs SD, Aben KK, Graif T, Cashy J, Ruiz-Echarri M, Wiley KE, Suarez BK, Witjes JA, Frigge M, Ober C, Jonsson E, Einarsson GV, Mayordomo JI, Kiemeney LA, Isaacs WB, Catalona WJ, Barkardottir RB, Gulcher JR, Thorsteinsdottir U, Kong A, Stefansson K (2007) Genome-wide association study identifies a second prostate cancer susceptibility variant at 8q24.
Xie C, Tammi MT (2009) CNV-seq, a new method to detect copy number variation using highthroughput sequencing. BMC Bioinformatics 10:80. Yeager M, Orr N, Hayes RB, Jacobs KB, Kraft P, Wacholder S, Minichiello MJ, Fearnhead P, Yu K, Chatterjee N, Wang Z, Welch R, Staats BJ, Calle EE, Feigelson HS, Thun MJ, Rodriguez C, Albanes D, Virtamo J, Weinstein S, Schumacher FR, Giovannucci E, Willett WC, CancelTassin G, Cussenot O, Valeri A, Andriole GL, Gelmann EP, Tucker M, Gerhard DS, Fraumeni JF Jr, Hoover R, Hunter DJ, Chanock SJ, Thomas G (2007) Genome-wide association study of prostate cancer identifies a second risk locus at 8q24.