Transcriptomics

Dataset Information

297

Whole transcriptome profiling of the rat pineal gland during development from embryonic day 21 to adult


ABSTRACT: The transcriptome of the rat pineal gland is highly dynamic, with many hundreds of genes changing more than two-fold on a 24-hr daily rhythm, as revealed earlier using Affymetrix GeneChip analysis. Several key transcription factors and enzymes are known to change dramatically during development of the pineal gland. Studies on a small number of genes indicate that the onset of rhythmic expression generally occurs later in development. This study characterizes this temporally dynamic transcriptome using RNA-Seq to capture information regarding alternative splicing, novel exons, unannotated mRNAs, non-coding RNAs and coding transcripts not represented on the Affymetrix chips. The rat pineal transcriptome was sequenced in samples from four ages, from embryonic day 21 through adult. At each age, samples were taken at mid-day and mid-night. Data were collected to describe the changes in the developing pineal transcriptome and to identify transcripts that exhibit day/night differences in expression at each age.

ORGANISM(S): Rattus norvegicus  

SUBMITTER: Cong Fu   Peter J Munson  James C Mullikin  Steven Coon  David Sugden  David C Klein  Praveen F Cherukuri  Samuel J Clokie  Steven L Coon 

PROVIDER: E-GEOD-46127 | ArrayExpress | 2014-10-24

SECONDARY ACCESSION(S): GSE46127SRP021119PRJNA197305

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

The Lhx9 homeobox gene controls pineal gland development and prevents postnatal hydrocephalus.

Yamazaki Fumiyoshi F   Møller Morten M   Fu Cong C   Clokie Samuel J SJ   Zykovich Artem A   Coon Steven L SL   Klein David C DC   Rath Martin F MF  

Brain structure & function 20140320 3


Lhx9 is a member of the LIM homeobox gene family. It is expressed during mammalian embryogenesis in the brain including the pineal gland. Deletion of Lhx9 results in sterility due to failure of gonadal development. The current study was initiated to investigate Lhx9 biology in the pineal gland. Lhx9 is highly expressed in the developing pineal gland of the rat with transcript abundance peaking early in development; transcript levels decrease postnatally to nearly undetectable levels in the adult  ...[more]

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