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Transcription profiling of mouse lymphoblast cell line L1210 to validate replication timing experiments

ABSTRACT: In this experiment, total RNA was extracted from asynchronous population of L1210 cells and hybridized to Affymetrix 430A 2.0 arrays in order to obtain an expression profile of these cells. We have previously mapped the replication timing of the entire mouse genome in this cell line, using mouse CGH arrays (see E-MEXP-1022). We wanted to validate in our system the known correlation between early replication and expression and to analyze its extent. To this end, we have measured the expression in the same cell line (L1210 cells). Two biological replicates were hybridized to 2 identical microarrays. Expression levels were highly similar between the 2 replicates (r=0.98).

ORGANISM(S): Mus musculus

SUBMITTER: Shlomit Farkash-Amar 

PROVIDER: E-MEXP-1681 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Global organization of replication time zones of the mouse genome.

Farkash-Amar Shlomit S   Lipson Doron D   Polten Andreas A   Goren Alon A   Helmstetter Charles C   Yakhini Zohar Z   Simon Itamar I  

Genome research 20080730 10

The division of genomes into distinct replication time zones has long been established. However, an in-depth understanding of their organization and their relationship to transcription is incomplete. Taking advantage of a novel synchronization method ("baby machine") and of genomic DNA microarrays, we have, for the first time, mapped replication times of the entire mouse genome at a high temporal resolution. Our data revealed that although most of the genome has a distinct time of replication ei  ...[more]

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