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Haley M Simpson, Rashid Z Khan, Chang Song, Deva Sharma, Kavitha Sadashivaiah, Aki Furusawa, Xinyue Liu, Sushma Nagaraj, Naomi Sengamalay, Lisa Sadzewicz, Luke J Tallon, Qing C Chen, Ferenc Livak, Aaron P Rapoport, Amy Kimball, Arnob Banerjee
Peripheral T cell lymphoma (PTCL) is a heterogeneous malignancy with poor response to current therapeutic strategies and incompletely characterized genetics. We conducted whole exome sequencing of matched PTCL and non-malignant samples from 12 patients, spanning 8 subtypes, to identify potential oncogenic mutations in PTCL. Analysis of the mutations identified using computational algorithms, CHASM, PolyPhen2, PROVEAN, and MutationAssessor to predict the impact of these mutations on protein function and PTCL tumorigenesis, revealed 104 somatic mutations that were selected as high impact by all four algorithms...
2015: PloS One
Virginia Rodriguez, Yidong Chen, Abdel Elkahloun, Amalia Dutra, Evgenia Pak, Settara Chandrasekharappa
Genomic changes in chromosome 8 are commonly observed in breast cancer cell lines and tumors. To fine map such genomic changes by comparative genomic hybridization (CGH), a high resolution (100 kb) chromosome 8 array that can detect single copy changes was developed using Phi29 DNA polymerase amplified BAC (bacterial artificial chromosome) DNA. The BAC array CGH resolved the two known amplified regions (8q21 and 8q24) of a breast cancer cell line (SKBR3) into nine separate regions including six amplicons and three deleted regions, all of which were verified by Fluorescence in situ hybridization...
July 2007: Genes, Chromosomes & Cancer
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