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Transcriptome-guided characterization of genomic rearrangements in a breast cancer cell line

by Zhao, Qi , Galante, Pedro A , Caballero, Otavia L , Simpson, Andrew J.G , Venter, J. Craig , Iseli, Christian , Busam, Dana , Stevenson, Brian J , Chadalavada, Kalyani , Leversha, Margaret A , de Souza, Sandro J , Rogers, Yu-Hui , Levy, Samuel , Strausberg, Robert L

in Base Sequence / Biological Sciences / Breast cancer / breast neoplasms / Breast Neoplasms - genetics / Cancer / carcinogenesis / Carrier Proteins - genetics / Cell Line, Tumor / Cell lines / Cells / Chromosomes / Complementary DNA / DNA / DNA, Complementary / DNA-Binding Proteins - genetics / Female / Gene Expression Profiling - methods / Gene Rearrangement / Genes / Genome, Human - genetics / Genomes / Genomics / Histone-Lysine N-Methyltransferase / Humans / MRE11 Homologue Protein / Neoplasm Proteins - genetics / Nuclear Proteins - genetics / nucleotide sequences / Sequencing / Transcriptomes / transcriptomics

2009

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Transcriptome-guided characterization of genomic rearrangements in a breast cancer cell line

2009

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Transcriptome-guided characterization of genomic rearrangements in a breast cancer cell line

2009

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Journal Article

Transcriptome-guided characterization of genomic rearrangements in a breast cancer cell line

Zhao, Qi,

Galante, Pedro A,

Caballero, Otavia L,

Simpson, Andrew J.G,

Venter, J. Craig,

Iseli, Christian,

Busam, Dana,

Stevenson, Brian J,

Chadalavada, Kalyani,

Leversha, Margaret A,

de Souza, Sandro J,

Rogers, Yu-Hui,

Levy, Samuel,

Strausberg, Robert L

2009

Overview

We have identified new genomic alterations in the breast cancer cell line HCC1954, using high-throughput transcriptome sequencing. With 120 Mb of cDNA sequences, we were able to identify genomic rearrangement events leading to fusions or truncations of genes including MRE11 and NSD1, genes already implicated in oncogenesis, and 7 rearrangements involving other additional genes. This approach demonstrates that high-throughput transcriptome sequencing is an effective strategy for the characterization of genomic rearrangements in cancers.

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Publisher

National Academy of Sciences,National Acad Sciences

Subject

Base Sequence

/ Biological Sciences

/ Breast cancer

/ breast neoplasms

/ Breast Neoplasms - genetics

/ Cancer

/ carcinogenesis