craig2018data

This data experimental data for analyzing sequence-dependent translocation of Hel308 helicase. The data can be opened in matlab, loading a data structure called ‘processedData’. ‘processedData’ fields are organized mostly as cell arrays, with the first cell corresponding to the experiment as defined by the field .sequenceNames, and the second cell to individual reads<br><br> This structure contains the following fields .currents - extracted ion current states (picoampere) .alignments – alignment of ion current states to reference sequence (level number). .levelToPos – conversion function from level number to DNA position (nt) .dwellTime – duration of current state. .class – classification of step type as defined in Craig 2017 (PNAS). 1 = backward following forwards, 2 = forwards following forwards, 3 = forwards following forwards, 4 = backwards following backwards. Probability of backwards step is defined by the expression number of 1 / (number of 1 + number of 3) .eventCounts – number of analyzed reads .sequenceNames – sequences names as defined in manuscript .sequences – full DNA sequences written 5prime to 3prime .generation – heteromer generation as defined in manuscript .rawData – ion current vs. time data sampled at 5 kHz (1 data point = 200 microseconds of data)

本数据集为用于分析Hel308解旋酶（Hel308 helicase）序列依赖性易位行为的实验数据。该数据集可通过MATLAB打开，加载名为`processedData`的数据结构。`processedData`的字段大多以元胞数组（cell arrays）形式组织，首个元胞对应由`.sequenceNames`字段定义的实验，第二个元胞对应单条测序读段。

该数据结构包含以下字段：
.currents：提取的离子电流状态，单位为皮安培（picoampere）；
.alignments：离子电流状态与参考序列的比对结果（即水平编号）；
.levelToPos：从水平编号到DNA位置（核苷酸，nt）的转换函数；
.dwellTime：电流状态的持续时长；
.class：按Craig等人2017年发表于《美国国家科学院院刊》（PNAS）的研究定义的步型分类：1=前向步后接后向步，2=前向步后接前向步，3=前向步后接前向步，4=后向步后接后向步；后向步的概率可通过公式 `类型1的数量 / (类型1的数量 + 类型3的数量)` 计算；
.eventCounts：已分析的测序读段总数；
.sequenceNames：论文中定义的序列名称；
.sequences：按5'端至3'端书写的完整DNA序列；
.generation：论文中定义的异聚体世代；
.rawData：以5 kHz采样的离子电流-时间数据，每个数据点对应200微秒的采样时长。