NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1846941 Query DataSets for GSM1846941
Status Public on Aug 06, 2016
Title ΔphoU;Pvan-phoU -vanillate/+vanillate 5 hours depletion rep 1
Sample type RNA
 
Channel 1
Source name mixed population in PYE + vanillate
Organism Caulobacter vibrioides NA1000
Characteristics genotype: ΔphoU;Pvan-phoU
treatment: 50 mM vanillate
Growth protocol Cells were grown to mid-log phase in rich medium (PYE) supplemented with 50 mM vanillate, washed, and released into PYE with or without vanillate. Cells were grown in mid-log phase for the specified number of hours before sampling.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNAeasy kit (Qiagen) according to manufacturer's protoco
Label Cy3
Label protocol RNA was reverse transcribed into cDNA as described previously (Laub et al. 2000)
 
Channel 2
Source name mixed population in PYE - vanillate
Organism Caulobacter vibrioides NA1000
Characteristics genotype: ΔphoU;Pvan-phoU
treatment: without vanillate
Growth protocol Cells were grown to mid-log phase in rich medium (PYE) supplemented with 50 mM vanillate, washed, and released into PYE with or without vanillate. Cells were grown in mid-log phase for the specified number of hours before sampling.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNAeasy kit (Qiagen) according to manufacturer's protoco
Label Cy5
Label protocol RNA was reverse transcribed into cDNA as described previously (Laub et al. 2000)
 
 
Hybridization protocol Agilent protocol
Scan protocol Arrays were scanned using Agilent Technologies Scanner G2505C
Arrays were scanned using Agilent Technologies Scanner G2505C
Description Cells grown in PYE + vanillate to mid-log phase, washed, and released into PYE + or - vanillate and grown in mid-log phase for the specified number of hours
Data processing Data were retrieved using Agilent Feature Extractor 10.6
 
Submission date Aug 07, 2015
Last update date Aug 06, 2016
Contact name Michael Laub
Organization name MIT
Street address 31 Ames St
City Cambridge
State/province MA
ZIP/Postal code 02142
Country USA
 
Platform ID GPL15487
Series (2)
GSE71857 Identification of the PhoB regulon and role of PhoU in the phosphate-starvation response of Caulobacter crescentus (expression)
GSE71961 Identification of the PhoB regulon and role of PhoU in the phosphate-starvation response of Caulobacter crescentus

Data table header descriptions
ID_REF
VALUE log10 ratio (Cy5/Cy3) representing test/reference

Data table
ID_REF VALUE
1 1.26E-01
2 -4.84E-02
3 -1.17E-01
4 -6.18E-02
5 -5.58E-02
6 -4.12E-03
7 1.00E-01
8 -7.87E-02
9 1.05E-01
10 2.51E-01
11 -1.76E-02
12 9.85E-03
13 2.11E-02
14 1.94E-03
15 7.82E-03
16 -6.86E-03
17 -6.50E-02
18 -4.10E-02
19 5.98E-02
20 -4.62E-02

Total number of rows: 15735

Table truncated, full table size 226 Kbytes.




Supplementary file Size Download File type/resource
GSM1846941_phoU_5_hrs_rep_1.txt.gz 1.6 Mb (ftp)(http) TXT
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap