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Live-cell imaging data for DASC (disassembly asymmetry score classification) analysis of calthrin-mediated endocytosis

dataset
posted on 28.04.2020 by Xinxin Wang, Zhiming Chen, Sandra Schmid, Gaudenz Danuser, Jungsik Noh, Marcel Mettlen

This dataset is for sharing all of the raw images analyzed in the paper, “DASC, a sensitive classifier for measuring discrete early stages in clathrin-mediated endocytosis”, https://doi.org/10.7554/eLife.53686. In the paper, we proposed a new method that can unbiasedly classify two populations of clathrin structures during endocytosis, clathrin coated pits and abortive coats. Based on this new classification, we measured phenotypes of siRNA knockdown of 11 endocytic accessory protein (EAP), analyzed clathrin-AP2 dual channel images and measured curvature formation during endocytosis.

Images in all four experiments are included in this data set, ‘EAP knockdown’, ‘alphaPIP2-’ as a positive control experiment, ‘CLC_AP2_dual’ as another control experiment, and ‘EpiTIRF’ for curvature measurement. Each experiment has various conditions, see the metadata file for details.

Readers can follow this README to obtain the entire data and then apply DASC, one experiment by one experiment, to reproduce the results in the associated paper. The software of DASC is available on GitHub: https://github.com/DanuserLab/cmeAnalysis. See the instruction on the GitHub page for how to use DASC to analyze the images.

Files in this data are compressed. Each ‘.tif.bz’ file is a compressed tif image sequence of fluorescently labeled cells. The names of these compressed files include descriptive information of ‘experiment’, ‘condition’, ‘date’, ‘cell name’ and ‘channel name’ (optional). These descriptors are separated by ‘#’.

The compressed files can be automatically decompressed by running the Matlab script ('Decompression.m') in a Linux system.

Funding

Mechanisms of Regulation of Clathrin-mediated Endocytosis

National Institute of General Medical Sciences

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The Clathrin Coated Vesicle Cycle

National Institute of Mental Health

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3D Quantitative Fluorescent Speckle Microscopy

National Institute of General Medical Sciences

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Welch grant I-1823

History

Select an IC:

  • GM - National Institute of General Medical Sciences (NIGMS)
  • MH - National Institute of Mental Health (NIMH)

Is this associated with a publication?

Yes

DOI(s) of associated publication(s):

I confirm there is no human identifiable information in this dataset.

Yes

Licence

Exports