Comparison of array-based comparative genomic hybridization with gene expression-based regional expression biases to identify genetic abnormalities in hepatocellular carcinoma.
Comparison of array-based comparative genomic hybridization with gene expression-based regional expression biases to identify genetic abnormalities in hepatocellular carcinoma.
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DOI：
10.1186/1471-2164-6-67
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发表时间：
2005-05-09
期刊：
影响因子：
4.4
通讯作者：
Chen X
中科院分区：
文献类型：
--
作者：
Furge KA;Dykema KJ;Ho C;Chen X
区域表达偏倚（REBs）是指基因表达发生协调变化的遗传区间。例如，如果基因组的一个区域被扩增，通常与位于细胞遗传学正常区域的基因相比，在扩增区域内的大多数基因表现出增加的表达。因此，reb有潜力作为传统上使用分子技术（如比较基因组杂交）获得的细胞遗传学数据的替代品。然而，由于reb是通过转录信息来识别的，因此检测reb也可以识别由遗传和表观遗传机制产生的局部转录异常。利用多跨移动二项检验从一组肝细胞癌（HCC）基因表达谱中鉴定出reb，并将其与基于阵列的比较基因组杂交（aCGH）鉴定出的遗传异常进行比较。在大多数情况下，reb与aCGH确定的遗传异常重叠。例如，两种方法都发现了1p染色体上频繁扩增的狭窄区域和17q染色体上频繁缺失的狭窄区域。在少数情况下，通过其他细胞遗传学技术未确定异常的区域中发现了reb。具体来说，反映细胞增殖的表达偏差在染色体6p21-23上经常被发现。使用多跨度移动二项检验对reb进行鉴定，可以合理地近似地得出潜在的细胞遗传学异常。然而，当将6p染色体上发现的reb归因于快速增殖细胞中的细胞遗传学事件时，应谨慎使用。
Regional expression biases (REBs) are genetic intervals where gene expression is coordinately changed. For example, if a region of the genome is amplified, often the majority of genes that map within the amplified region show increased expression when compared to genes located in cytogenetically normal regions. As such, REBs have the potential to act as surrogates for cytogenetic data traditionally obtained using molecular technologies such as comparative genomic hybridization. However as REBs are identified using transcriptional information, detection of REBs may also identify local transcriptional abnormalities produced by both genetic and epigenetic mechanisms. REBs were identified from a set of hepatocellular carcinoma (HCC) gene expression profiles using a multiple span moving binomial test and compared to genetic abnormalities identified using array-based comparative genomic hybridization (aCGH). In the majority of cases, REBs overlapped genetic abnormalities as determined by aCGH. For example, both methods identified narrow regions of frequent amplification on chromosome 1p and narrow regions of frequent deletion on 17q. In a minority of cases, REBs were identified in regions not determined to be abnormal via other cytogenetic technologies. Specifically, expression biases reflective of cell proliferation were frequently identified on chromosome 6p21-23. Identification of REBs using a multiple span moving binomial test produced reasonable approximations of underlying cytogenetic abnormalities. However, caution should be used when attributing REBs identified on chromosome 6p to cytogenetic events in rapidly proliferating cells.
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影响因子：
12.3
作者：
Gentleman RC;Carey VJ;Bates DM;Bolstad B;Dettling M;Dudoit S;Ellis B;Gautier L;Ge Y;Gentry J;Hornik K;Hothorn T;Huber W;Iacus S;Irizarry R;Leisch F;Li C;Maechler M;Rossini AJ;Sawitzki G;Smith C;Smyth G;Tierney L;Yang JY;Zhang J
通讯作者：
Zhang J
影响因子：
3.3
作者：
Chen, X;Cheung, ST;Brown, PO
通讯作者：
Brown, PO
影响因子：
4.4
作者：
Mao, R;Zielke, CL;Pevsner, J
通讯作者：
Pevsner, J
影响因子：
5.8
作者：
Hüsing, J;Zeschnigk, M;Jöckel, KH
通讯作者：
Jöckel, KH
DOI：
10.1073/pnas.161272798
发表时间：
2001-07-31
影响因子：
11.1
作者：
Lu, YJ;Williamson, D;Shipley, J
通讯作者：
Shipley, J