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Series GSE46442 Query DataSets for GSE46442
Status Public on Apr 29, 2013
Title RNA expression for ethanologenic E coli strains LY180, EMFR9 and EMFR35 in the absence and presence of 5mM and 15 mM furfural for 15 min
Platform organism Escherichia coli str. K-12 substr. MG1655
Sample organism Escherichia coli W
Experiment type Expression profiling by array
Summary The data explore the transcriptional response of strains LY180 and EMFR9 to 5 mM furfural under anaerobic fermentation condition
The data explore the transcriptional response of strains LY180 and EMFR35 to 15 mM furfural under anaerobic fermentation condition
The expression differences of polyamine transporters in LY180 vs EMFR9 and EMFR35 are further described in RD Geddes,X Wang, LP Yomano, EN Miller, H Zheng, KT Shanmugam, and LO Ingram. 2013. Selected Polyamines and Polyamine Transporters Increase Furfural Tolerance (in preparation for submission to Appl Env Microbiol)
 
Overall design Total RNA was prepared from cultures of LY180, EMFR9 and EMFR35 immediately before and 15 min after addition of furfural (5mM and 15 mM). The Nimblegen TI83333 chip measures expression of 4,237 genes, with 5 replicates, and 18 probes average per gene.
The complete dataset comprising 8 samples is linked below as a supplementary file.
 
Contributor(s) Geddes R, Wang X, Ingram LO
Citation(s) 25063650
Submission date Apr 27, 2013
Last update date Nov 04, 2014
Contact name Ryan Geddes
E-mail(s) rgeddes@ufl.edu
Organization name University of Florida
Department Microbiology and Cell Science
Lab Dr. Lonnie Ingram
Street address Building 981 Museum Road
City Gainesville
State/province Florida
ZIP/Postal code 32611
Country USA
 
Platforms (1)
GPL9088 NimbleGen Escherichia coli K12 TI83333 (385K)
Samples (2)
GSM1130179 EMFR35
GSM1130180 EMFR35_w 15mM furfural
Relations
Affiliated with GSM443990
Affiliated with GSM443991
Affiliated with GSM443992
Affiliated with GSM443993
Affiliated with GSM859519
Affiliated with GSM859520
BioProject PRJNA200544

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
GSE46442_RAW.tar 33.0 Mb (http)(custom) TAR (of PAIR)
GSE46442_complete_Matrix_8samples.txt.gz 131.1 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data provided as supplementary file
Processed data included within Sample table

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