Dataset Open Access

Single-particle tracking data for "CTCF sites display cell cycle dependent dynamics in factor binding and nucleosome positioning"

Marlies E Oomen; Anders S Hansen; Yu Liu; Xavier Darzacq; Job Dekker

This dataset contains all the raw SPT data reported in "­­­­CTCF sites display cell cycle dependent dynamics in factor binding and nucleosome positioning" in the form of SPT trajectories. The SPT trajectories are provided in two different formats for convenience: a CSV format and a Matlab format. Both formats are readable by Spot-On: https://spoton.berkeley.edu/

The SPT data contains "fast tracking" spaSPT data and this data was analyzed using the Matlab version of Spot-On which can be found and downloaded at: https://gitlab.com/tjian-darzacq-lab/spot-on-matlab

 

Full details about the Matlab and CSV formats are provided in the ReadMe files in the associated zip files.

Please see the associated manuscript for a detailed description of how the data was acquired and analyzed.

Acknowledgements: We thank Sarah Hainer and Tom Fazzio for advice on ATAC-seq data interpretation and providing reagents. We thank Sheila Teves and all current and former Dekker lab members for helpful discussions; especially Betul Akgol Oksuz, Bryan Lajoie, Ankita Nand and Hakan Ozadam for advice on computational analysis. This work was supported by grants from the National Human Genome Research Institute (HG003143) and the NIH Common Fund (DK107980) to J.D. and by NIH grants UO1-EB021236 and U54-DK107980 (X.D.), the California Institute of Regenerative Medicine grant LA1-08013 (X.D.). This work was performed in part at the UC Berkeley CRL Molecular Imaging Center, supported by the Gordon and Betty Moore Foundation. A.S.H. is a postdoctoral fellow of the Siebel Stem Cell Institute. J.D. is an investigator of the Howard Hughes Medical Institute.
Files (110.0 MB)
Name Size
fastSPT_raw_data.zip
md5:cc1b1fa7f6cf7587f4c049607a8d39f9 		110.0 MB Download
69
0
views
downloads
All versions This version
Views 6969
Downloads 00
Data volume 0 Bytes0 Bytes
Unique views 6464
Unique downloads 00
More info on how stats are collected.
Indexed in
Publication date:
July 6, 2018
DOI:
10.5281/zenodo.1306976

Zenodo DOI Badge

DOI 

10.5281/zenodo.1306976

Markdown 

[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.1306976.svg)](https://doi.org/10.5281/zenodo.1306976)

reStructedText 

.. image:: https://zenodo.org/badge/DOI/10.5281/zenodo.1306976.svg
   :target: https://doi.org/10.5281/zenodo.1306976

HTML 

<a href="https://doi.org/10.5281/zenodo.1306976"><img src="https://zenodo.org/badge/DOI/10.5281/zenodo.1306976.svg" alt="DOI"></a>

Image URL 

https://zenodo.org/badge/DOI/10.5281/zenodo.1306976.svg

Target URL 

https://doi.org/10.5281/zenodo.1306976

Keyword(s):
CTCF Mitosis Prometaphase Single-molecule Single-particle tracking imaging Spot-On
License (for files):
Creative Commons Attribution 4.0 International

Versions

Version 1 10.5281/zenodo.1306976 Jul 6, 2018
Cite all versions? You can cite all versions by using the DOI 10.5281/zenodo.1306975. This DOI represents all versions, and will always resolve to the latest one. Read more.

Share

Cite as

Export