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arXiv 1901.06006cs.CVcs.LGq-bio.QM
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实例级微管跟踪

Instance-Level Microtubule Tracking

University of Central Florida(中佛罗里达大学);University of Wyoming(怀俄明大学)

Samira Masoudi, Afsaneh Razi, Cameron H. G. Wright, Jay C. Gatlin, Ulas Bagci

摘要:

我们提出了一种新的方法,实例级微管(MT)跟踪延时图像系列使用循环注意。我们的新型深度学习算法在每帧分割单个MT。来自连续帧的分割结果用于分配MT之间的对应关系。这最终为每个MT生成通过帧的不同路径轨迹。基于这些轨迹,我们估计MT速度。为了验证我们提出的技术,我们进行实验,使用真实和模拟数据。我们使用来自MT滑动测定的实时的推移系列的统计数据来模拟我们的模拟数据中的现实MT时间推移图像系列。在对真实数据进行训练之前,该数据集被用作我们网络的预训练和超参数优化。实验结果表明,本文提出的监督学习算法将MT实例速度估计的精度从基线结果(29.3%)大幅提高到71.3%。我们还展示了将时间信息纳入深度网络如何将假阴性率从67.8%(基线)降低到28.7%(建议)。我们在这项工作中的发现有望帮助生物学家表征MT的空间排列,特别是MT-MT相互作用的影响。

英文摘要:

We propose a new method of instance-level microtubule (MT) tracking in time-lapse image series using recurrent attention. Our novel deep learning algorithm segments individual MTs at each frame. Segmentation results from successive frames are used to assign correspondences among MTs. This ultimately generates a distinct path trajectory for each MT through the frames. Based on these trajectories, we estimate MT velocities. To validate our proposed technique, we conduct experiments using real and simulated data. We use statistics derived from real time-lapse series of MT gliding assays to simulate realistic MT time-lapse image series in our simulated data. This dataset is employed as pre-training and hyperparameter optimization for our network before training on the real data. Our experimental results show that the proposed supervised learning algorithm improves the precision for MT instance velocity estimation drastically to 71.3% from the baseline result (29.3%). We also demonstrate how the inclusion of temporal information into our deep network can reduce the false negative rates from 67.8% (baseline) down to 28.7% (proposed). Our findings in this work are expected to help biologists characterize the spatial arrangement of MTs, specifically the effects of MT-MT interactions.

机构、总结、中文摘要均由AI分析而来,可能存在错误,请以论文正文为准。

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