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| Status |
Public on Apr 20, 2006 |
| Title |
Gene expression analysis of peritoneal mesotheliomas following chemical treatment in F344 rats |
| Organism |
Rattus norvegicus |
| Experiment type |
Expression profiling by array
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| Summary |
This study was performed to characterize the gene expression profile of rat peritoneal mesothelioma (RPM) formation following treatment of Fischer 344 rats with o-nitrotoluene (o-NT) or bromochloracetic acid (BCA).
Keywords: Rat, Mesotheliomas, Bromochloractetic acid, o-Nitrotoluene, Carcinogenesis, Microarray
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| Overall design |
Four mesotheliomas from o-NT-treated rats and four mesotheliomas from BCA-treated rats were selected for microarray analysis. At necrosy, the tumors were collected, minced and flash frozen in liquid nitrogen. A non-transformed mesothelial cell line, Fred-PE (passage eight), was used as a source of reference RNA. Total RNAs from tumor tissue and Fred-PE were isolated with the RNeasy kit and 500 ng of total RNA was amplified and labeled using the Agilent Low RNA Input Fluorescent Linear Amplification Kit according to the manufacturer's protocol. For each two color comparison, 750 ng of each Cy3- and Cy5-labeled cRNA were mixed and fragmented using the Agilent In Situ Hybridization Kit protocol. Hybridizations were performed for 17 hours in a rotating hybridization oven according to the Agilent 60-mer oligo microarray processing protocol prior to washing and scanning with an Agilent Scanner. Data was obtained using the Agilent Feature Extraction software (v7.5), using default for all parameters. Two arrays for each comparison were used, incorporating a fluor reversal.
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| Contributor(s) |
Kim Y, Ton T, DeAngelo AB, Morgan K, Devereux TR, Anna C, Collins JB, Paules RS, Crosby LM, Sills RC |
| Citation(s) |
16460773, 16884916 |
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| Submission date |
Apr 18, 2006 |
| Last update date |
Dec 06, 2012 |
| Contact name |
NIEHS Microarray Core |
| E-mail(s) |
microarray@niehs.nih.gov, liuliw@niehs.nih.gov
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| Organization name |
NIEHS
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| Department |
DIR
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| Lab |
Microarray Core
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| Street address |
111 T.W. Alexander Drive
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| City |
RTP |
| State/province |
NC |
| ZIP/Postal code |
27709 |
| Country |
USA |
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| Platforms (1) |
| GPL890 |
Agilent-011868 Rat Oligo Microarray G4130A (Feature Number version) |
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| Samples (16)
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| GSM105775 |
Fred Pep8 peritoneal mesothial vs. SO2726 (ExpID 2564) |
| GSM105776 |
SO2726 vs. Fred Pep8 peritoneal mesothial (ExpID 2564) |
| GSM105777 |
Fred Pep8 peritoneal mesothial vs. SO2732 (ExpID 2565) |
| GSM105778 |
SO2732 vs. Fred Pep8 peritoneal mesothial (ExpID 2565) |
| GSM105779 |
Fred Pep8 peritoneal mesothial vs. SO2542 (ExpID 2562) |
| GSM105780 |
SO2542 vs. Fred Pep8 peritoneal mesothial (ExpID 2562) |
| GSM105781 |
Fred Pep8 peritoneal mesothial vs. SO2545 (ExpID 2563) |
| GSM105782 |
SO2545 vs. Fred Pep8 peritoneal mesothial (ExpID 2563) |
| GSM105783 |
Fred Pep8 peritoneal mesothial vs. SO2038 (ExpID 2558) |
| GSM105784 |
so2038 vs. Fred Pep8 peritoneal mesothial (ExpID 2558) |
| GSM105785 |
Fred Pep8 peritoneal mesothial vs. SO2213 (ExpID 2557) |
| GSM105786 |
SO2213 vs. Fred Pep8 peritoneal mesothial (ExpID 2557) |
| GSM105787 |
Fred Pep8 peritoneal mesothial vs. SO2274 (ExpID 2561) |
| GSM105788 |
SO2274 vs. Fred Pep8 peritoneal mesothial (ExpID 2561) |
| GSM105789 |
Fred Pep8 peritoneal mesothial vs. SO2122 (ExpID 2560) |
| GSM105790 |
SO2122 vs. Fred Pep8 peritoneal mesothial (ExpID 2560) |
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| Relations |
| BioProject |
PRJNA96791 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE4682_RAW.tar |
493.6 Mb |
(http)(custom) |
TAR (of TIFF, TXT) |
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