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Series GSE57365 Query DataSets for GSE57365
Status Public on Oct 16, 2014
Title The Global Landscape of Transcription Initiation During the Caulobacter Cell Cycle [mapping]
Organism Caulobacter vibrioides NA1000
Experiment type Expression profiling by high throughput sequencing
Summary The Caulobacter cell cycle includes in an asymmetric cell division that is driven by a core regulatory circuit comprised of 4 transcription factors (DnaA, GcrA, CtrA, and SciP) and a DNA methyltransferase (CcrM). Using a modified global 5’ RACE protocol we mapped 2,726 transcriptional start sites (TSS) in the 4mb Caulobacter genome and identified 586 cell cycle-regulated TSS. The core cell cycle circuit directly controls about 55% of cell cycle-regulated TSS by integrating multiple regulatory inputs within at least 322 promoters, providing a large number of transcription profiles from a small number of regulatory factors. Here, we identified previously unknown features of the core cell cycle circuit, including antisense TSS within dnaA and ctrA, plus newly identified TSS for ctrA and ccrM. Altogether, we identified 615 antisense TSS plus 241 genes that are transcribed from multiple TSS. The multiple TSS in the same promoter region often exhibit different cell cycle activation timing, These novel features of the global transcript profile add significant insight to the system architecture of the Caulobacter cell cycle regulatory circuit.
 
Overall design Global 5' RACE was performed to map Transcription Start Sites in the Caulobacter NA1000 genome
 
Contributor(s) Zhou B, Schrader JM, McAdams HH, Shapiro L
Citation(s) 25569173
Submission date May 06, 2014
Last update date May 15, 2019
Contact name Jared Michael Schrader
E-mail(s) schrader@wayne.edu
Organization name Wayne State University
Department Biological Sciences
Lab Schrader Lab
Street address 5047 Gullen Mall, Biological Sciences Building Room 2168
City Detroit
State/province MI
ZIP/Postal code 48202
Country USA
 
Platforms (1)
GPL18275 Illumina Genome Analyzer (Caulobacter crescentus NA1000)
Samples (2)
GSM1381199 tap+
GSM1381200 tap-
This SubSeries is part of SuperSeries:
GSE57366 The Global Landscape of Transcription Initiation During the Caulobacter Cell Cycle
Relations
BioProject PRJNA246338
SRA SRP041727

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE57365_tap_TSS.txt.gz 21.0 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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