Dataset features

Specifications


Application: Gene expression microarray analysis
Number of samples: 2
Release date: Feb 22 2010
Last update date: Mar 21 2012
Access: Public
Dataset link E. coli K-12 hha hns: pCA24N-hnsK57N vs pCA24N-hns biofilm

Experimental Protocol


For the whole transcriptome study of BW25113 hha hns / pCA24N-hns K57N versus BW25113 hha hns / pCA24N-hns, cells were grown in 250 mL LB containing 1 mM IPTG for 7 h with 10 g of glass wool (Corning Glass Works, Corning, N.Y.) in 1 L Erlenmeyer flasks to form a robust biofilm. Biofilm cells were obtained by rinsing and sonicating the glass wool in sterile 0.85% NaCl solution at 0°C, and RNALater buffer® (Applied Biosystems, Foster City, CA) was added for RNA stabilization and protection during the RNA preparation steps. Total RNA was isolated from biofilm cells. The E. coli GeneChip Genome 2.0 array (Affymetrix, Lot# 4059655) containing 10,208 probe sets for four E. coli strains (MG1655, CFT073, O157:H7-Sakai, and O157:H7-EDL933) was used for DNA microarray. cDNA synthesis, fragmentation, and hybridizations were performed.

Repositories


GEO

GSE17853

ArrayExpress

E-GEOD-17853

BioProject

PRJNA120091

Download


Contact


Thomas Wood
Seok Hoon Hong