Probabilistic estimation of microarray data reliability and underlying gene expression.
Probabilistic estimation of microarray data reliability and underlying gene expression.
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DOI：
10.1186/1471-2105-4-40
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发表时间：
2003-09-10
影响因子：
3
通讯作者：
Sigvardsson, M
中科院分区：
文献类型：
--
作者：
Bilke, S;Breslin, T;Sigvardsson, M
用于测量mRNA浓度的高通量方法的可用性使得从数据得出的结论的可靠性以及样品和杂交的全球质量控制成为重要问题。我们解决这些问题的信息理论的方法，适用于离散化的表达值在复制的基因表达数据。我们的方法产生了两个重要参数类的定量测量：第一，概率P（σ| S）在某一品种中，基因处于生物学状态σ，给定其在该品种样品中观察到的表达S。第二，样本特定误差概率，作为每个品种的测量样本的一致性指标。该方法及其局限性进行了测试的基因表达数据开发小鼠B细胞和t检验作为参考。在一组已知基因上，它的表现优于t检验，尽管粗略地离散为仅两个表达水平。一致性指标，即误差概率，与生物材料的变化很好地相关，因此证明是有效的。所提出的方法是有效的，在确定差异基因表达和样本的可靠性在重复的微阵列数据。已经在每个样品中的两个离散的表达水平，它给出了一个很好的解释的数据，是可比的标准技术。
The availability of high throughput methods for measurement of mRNA concentrations makes the reliability of conclusions drawn from the data and global quality control of samples and hybridization important issues. We address these issues by an information theoretic approach, applied to discretized expression values in replicated gene expression data. Our approach yields a quantitative measure of two important parameter classes: First, the probability P(σ|S) that a gene is in the biological state σ in a certain variety, given its observed expression S in the samples of that variety. Second, sample specific error probabilities which serve as consistency indicators of the measured samples of each variety. The method and its limitations are tested on gene expression data for developing murine B-cells and a t-test is used as reference. On a set of known genes it performs better than the t-test despite the crude discretization into only two expression levels. The consistency indicators, i.e. the error probabilities, correlate well with variations in the biological material and thus prove efficient. The proposed method is effective in determining differential gene expression and sample reliability in replicated microarray data. Already at two discrete expression levels in each sample, it gives a good explanation of the data and is comparable to standard techniques.
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影响因子：
5.8
作者：
Li, FG;Stormo, GD
通讯作者：
Stormo, GD
DOI：
10.1073/pnas.150242097
发表时间：
2000-07-18
影响因子：
11.1
作者：
Holter, NS;Mitra, M;Fedoroff, NV
通讯作者：
Fedoroff, NV
影响因子：
16
作者：
Cho, RJ;Campbell, MJ;Davis, RW
通讯作者：
Davis, RW
DOI：
10.1073/pnas.97.18.10101
发表时间：
2000-08-29
影响因子：
11.1
作者：
Alter, O;Brown, PO;Botstein, D
通讯作者：
Botstein, D
影响因子：
20.3
作者：
Högerkorp, CM;Bilke, S;Borrebaeck, CAK
通讯作者：
Borrebaeck, CAK