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Stochastic motion and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome - MaRDI portal

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Stochastic motion and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome

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DOI10.5281/zenodo.7616203Zenodo7616203MaRDI QIDQ6693543

Dataset published at Zenodo repository.

Author name not available (Why is that?)

Publication date: 7 February 2023

Copyright license: No records found.



Description

This repository contains the trajectory data from Stochastic motion and transcriptional dynamics of pairs of distal DNA loci on a compacted chromosome. Data sets We provide data sets for the following constructs and imaging conditions, where we give the name of the construct and the MS2-parS genomic separation in kb: data_line0.csv: parS-homie-evePr-PP7, 58 kb data_line1.csv: parS-homie-evePr-PP7, 82 kb data_line2.csv: parS-homie-evePr-PP7, 88 kb data_line3.csv: parS-homie-evePr-PP7, 149 kb data_line4.csv: parS-homie-evePr-PP7, 190 kb data_line5.csv: parS-homie-evePr-PP7, 595 kb data_line6.csv: parS-homie-evePr-PP7, 3.3 Mb data_line3_5s.csv: parS-homie-evePr-PP7, 149 kb, 5 second time interval data_line0_nohomie.csv: parS-lambda-evePr-PP7, 58 kb data_line3_nohomie.csv: parS-lambda-evePr-PP7, 149 kb Structure of Data The trajectory data are provided as csv files consisting of 13 columns. The column headers are: cell_id: a unique cell index time_point: the time frame x_blue: x-coordinate of the locus in the blue channel (units in nm) y_blue: y-coordinate of the locus in the blue channel (units in nm) z_blue: z-coordinate of the locus in the blue channel (units in nm) x_green: x-coordinate of the locus in the green channel (units in nm) y_green: y-coordinate of the locus in the green channel (units in nm) z_green: z-coordinate of the locus in the green channel (units in nm) x_Rij: x-component of the aberration corrected 3D distance vector connecting the blue and green loci (units in nm) y_Rij: y-component of the aberration corrected 3D distance vector connecting the blue and green loci (units in nm) z_Rij: z-component of the aberration corrected 3D distance vector connecting the blue and green loci (units in nm) red: intensity in the red channel (a.u.) state: inferred state using a 3-state HMM, with entries 0 (O_off), 1 (P_off), 2 (P_on)






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