Dataset features

Specifications


Application: RNA-seq analysis
Number of samples: 23
Release date: Jun 5 2016
Last update date: Jun 13 2016
Access: Public
Taxon: Caulobacter vibrioides
Dataset link Transcription rate and transcript length drive the formation of chromosomal interaction domain

Experimental Protocol


Hi-C experiments were performed on (i) untreated wild type swarmer cells and drug-treated swarmer cells (Chloramphenicol) of Caulobacter crescentus CB15N; (ii) on swarmer cells that are starved in M2 salts for 90 minutes; (iii) on swarmer cells harboring van::PrsaA_rsaA as well as derivatives of rsaA with a cassette of 2xTAA 2x transcription terminator inserted at 60bp, 560bp, 1060 and 2060 bp from the transcription start site of the ectopic rsaA; (iv) on CB15N strain ML2000 (Plac::dnaA) at time points 90 min, 150 min, 210 min and 270 min after IPTG withdrawal; and (v) on CB15N strain overexpressing CtrAD51E_delta_omega at time point 0 min, 120 min and 180 min after addition of the inducer (xylose). RNA-seq experiment were performed on RNA extracted from (i) wild-type CB15N cells growing at exponential phase in PYE; and (ii) wild-type CB15N cells starved in M2 salts for 90 min.

Repositories


GEO

GSE74364

ENA

SRP065280

BioProject

PRJNA299824

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Contact


TUNG LE