Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

Transcription profiling by array of human primary hepatocytes treated with trovafloxacin


ABSTRACT: Trovafloxacin is a broad spectrum antibiotic that inhibits the uncoiling of supercoiled DNA in various bacteria by blocking the activity of DNA gyrase and topoisomerase IV. Specific members of this drug family display high activity against eukaryotic type II topoisomerase, as well as cultured mammalian cells and in vivo tumor models. Trovafloxacin seems to have a higher affinity for eukaryotic polymerase II system than the other quinolone agents tested. This effect coupled with other factors, such as an inflammatory response, might result in a hepatotoxic reaction seen with drug. In this study we found genes regulated by trovafloxacin - induced and repressed - to be located much closer to each other than genes distributed randomly all over the genome (< 100 kbp). Experiment Overall Design: We calculated specifically the probability by which particular genes which were deregulated by the treatment of human hepatocytes with trovafloxacin will occur within DNA windows of different sizes as compared to the probability of all known mapped genes (RefSeq transcripts) of the human genome (NCBI RefSeq 19,360; build 36.2) to occur within the same DNA windows.

This experiment was reloaded in November 2010 after additional curation.

ORGANISM(S): Homo sapiens

SUBMITTER: Jeurgen Borlak 

PROVIDER: E-GEOD-11941 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

altmetric image

Publications

Topoisomerase II inhibition involves characteristic chromosomal expression patterns.

Reymann Susanne S   Borlak Jürgen J  

BMC genomics 20080708


<h4>Background</h4>The phenomenon of co-localization of transcriptionally upregulated genes showing similar expression levels is known across all eukaryotic genomes. We recently mapped the Aroclor 1254-regulated transcriptome back onto the genome and provided evidence for the statistically significant co-localization of regulated genes. They did, however, not always show similar expression levels, and many of the regulated genes were, in fact, repressed.<h4>Results</h4>In this study, we were abl  ...[more]

Similar Datasets

2008-10-10 | E-GEOD-11940 | biostudies-arrayexpress
2008-10-26 | E-GEOD-11942 | biostudies-arrayexpress
2016-09-28 | E-MTAB-4444 | biostudies-arrayexpress
2010-06-08 | E-GEOD-20659 | biostudies-arrayexpress
2016-01-18 | E-MTAB-3994 | biostudies-arrayexpress
2016-04-06 | E-GEOD-79933 | biostudies-arrayexpress
2011-03-22 | E-MEXP-2636 | biostudies-arrayexpress
2011-01-11 | E-MEXP-2539 | biostudies-arrayexpress
2009-09-11 | E-GEOD-17254 | biostudies-arrayexpress
2013-04-01 | E-GEOD-33742 | biostudies-arrayexpress