Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of mouse thymocytes from ild type or RORg-/- animals


ABSTRACT: Microarray analysis was performed in order to identify changes in gene expression in thymocytes isolated from RORg-/- mice in comparison to those of wild type mice. Experiment Overall Design: Microarray analyses were carried out by the NIEHS Microarray Group (NMG). Gene expression analysis was conducted using Agilent Mouse arrays (Agilent Technologies, Palo Alto, CA) representing about 20,000 genes. For each condition, equal amounts of total RNA from thymocytes of three individual wild type or RORg-/- mice were pooled and amplified. Total RNA was amplified using the Agilent Low RNA Input Fluorescent Linear Amplification Kit protocol. Starting with 1 mg of total RNA, Cy3- or Cy5-labeled cRNA was synthesized according to manufacturer’s protocol. For each comparison, 750 ng of each Cy3- and Cy5-labeled cRNAs were mixed and fragmented using the Agilent In Situ Hybridization Kit protocol. Hybridizations were performed for 17 h in a rotating hybridization oven using the Agilent 60-mer oligo microarray processing protocol. Slides were washed as indicated in this protocol and then scanned with an Agilent Scanner. Data was obtained with the Agilent Feature Extraction software (v7.1) using defaults for all parameters.

ORGANISM(S): Mus musculus

SUBMITTER: NIEHS Microarray Group 

PROVIDER: E-GEOD-4248 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

NABP1, a novel RORgamma-regulated gene encoding a single-stranded nucleic-acid-binding protein.

Kang Hong Soon HS   Beak Ju Youn JY   Kim Yong-Sik YS   Petrovich Robert M RM   Collins Jennifer B JB   Grissom Sherry F SF   Jetten Anton M AM  

The Biochemical journal 20060701 1


RORgamma2 (retinoid-related orphan receptor gamma2) plays a critical role in the regulation of thymopoiesis. Microarray analysis was performed in order to uncover differences in gene expression between thymocytes of wild-type and RORgamma-/- mice. This analysis identified a novel gene encoding a 22 kDa protein, referred to as NABP1 (nucleic-acid-binding protein 1). This subsequently led to the identification of an additional protein, closely related to NABP1, designated NABP2. Both proteins cont  ...[more]

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