样本:用于快速分析整个幻灯片组织图像的经验分布表示
Patience Mukashyaka1,2, Todd B Sheridan1,3, Ali Foroughi Pour1
1The Jackson Laboratory for Genomic Medicine, Farmington, CT.
bioRxiv : the preprint server for biology
|August 14, 2023
概括
采样,一种新的统计方法,从特征创建高效的整个幻灯片图像表示. 它在癌症亚型的准确性上与深度学习注意力模型相匹配或超过,同时在数字病理学上是100倍以上的速度和更大的可扩展性.
科学领域:
- 数字病理学数字病理学
- 计算病理学计算病理学
- 机器学习在组织病理学中的应用.
背景情况:
- 整个幻灯片图像 (WSIs) 通过使用深度学习进行分析,将它们分解为和编码特征.
- 基于注意力的深度学习模型将特征汇总为幻灯片级预测,但计算密集.
- 训练注意力模型需要大量的计算资源和专门的程序.
研究的目的:
- 提出SAMPLER,一种完全统计方法,用于生成高效和信息丰富的WSI表示.
- 为了证明SAMPLER的准确性和速度与最先进的深度学习注意力模型相比.
- 用SAMPLER概念来增强基于注意力的神经网络,以提高性能.
主要方法:
- SAMPLER编码多尺度特征的实证累积分布函数 (CDF),以创建WSI表示.
- 经过训练,分类人员使用SAMPLER表示来进行癌症亚型分类.
- 样本概念被整合到基于注意力的神经网络中.
主要成果:
- 基于SAMPLER的分类器实现了与乳腺癌 (BRCA),非小细胞肺癌 (NSCLC) 和细胞癌 (RCC) 亚型分类的注意力模型相似或更好的准确性.
- 与注意力模型相比,SAMPLER预测模型显示了超过100倍的速度改进.
- 组织病理学审查验证了SAMPLER对诊断相关的识别.
- 采用SAMPLER概念的增强注意力模型显示BRCA和RCC亚型分类的准确性增加.
结论:
- SAMPLER提供了一种快速,有效和统计基础的方法来进行WSI分析.
- 与注意力方法相比,SAMPLER显著提高了可扩展性,有利于数字病理学.
- 该方法为WSI表示和分析提供了一个计算效率高的替代方案.
相关概念视频
01:05Histogram
The histogram is a graphical representation in the x-y form of data distribution in a data set. The horizontal x-axis is labeled with what the data represents (for instance, distance from your home to school). The vertical y-axis is labeled either frequency or relative frequency (or percent frequency or probability).
A histogram graph consists of contiguous (adjoining) boxes. The heights of the bars correspond to frequency values. The graph will have the same shape with respective labels. The...
A histogram graph consists of contiguous (adjoining) boxes. The heights of the bars correspond to frequency values. The graph will have the same shape with respective labels. The...
01:12Boxplot
Box plots (also called box-and-whisker plots or box-whisker plots) give an excellent graphical image of the concentration of the data. They also show how far the extreme values are from most data. A box plot is constructed from five values: the minimum value, the first quartile, the median, the third quartile, and the maximum value. We use these values to compare how close other data values are to them. To construct a box plot, use a horizontal or vertical number line and a rectangular box. The...
01:17Probability Histograms
A probability histogram is a visual representation of a probability distribution. Similar a typical histogram, the probability histogram consists of contiguous (adjoining) boxes. It has both a horizontal axis and a vertical axis. The horizontal axis is labeled with what the data represents. The vertical axis is labeled with probability. Each rectangular bar in the histogram is 1 unit wide, which suggests that the area under each bar equals the probability, P(x), where x is 1, 2, 3, and so on.