Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

Small RNAs profiling by using microarray with custom-designed probes


ABSTRACT: We designed a group of probes for detection of known and some putative E. coli sRNAs and included them in a commercial microarray containing a standard set of probes developed by Agilent Technologies for hybridization with E. coli transcripts. To assess the potential of the re-designed microarray to detect E. coli sRNAs, RNA profiling experiments were performed with total RNA extracted from E. coli MG1655 cells in log phase, grown in rich (Luria-Bertani) and minimall (M9/Glucose) media. The microarray data obtained indicate that many sRNAs could yield reasonably strong signals (i.e. considerably above the background). With few exceptions (such as SraA, IstR-1, OmrA, RseX and DicF), nearly all known trans-encoded sRNAs annotated in several databases including EcoCyc, RNAMap and BSRD were detected. The expression patterns of some transcripts were further validated by Northern blot analysis.

INSTRUMENT(S): G2565CA DNA microarray scanner (Agilent)

ORGANISM(S): Escherichia coli str. K-12 substr. MG1655

SUBMITTER: Olatz Ruiz-Larrabeiti 

PROVIDER: E-MTAB-3329 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

Similar Datasets

2017-02-28 | E-MTAB-5433 | biostudies-arrayexpress
2017-02-28 | E-MTAB-5432 | biostudies-arrayexpress
2011-06-15 | E-TABM-1156 | biostudies-arrayexpress
2016-07-31 | E-GEOD-53345 | biostudies-arrayexpress
2016-07-31 | E-GEOD-53346 | biostudies-arrayexpress
2012-12-21 | E-GEOD-38469 | biostudies-arrayexpress
2013-11-06 | E-MTAB-655 | biostudies-arrayexpress
2016-07-31 | E-GEOD-53344 | biostudies-arrayexpress
2016-10-24 | E-GEOD-51662 | biostudies-arrayexpress
2012-04-26 | E-GEOD-29877 | biostudies-arrayexpress