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Status |
Public on Jun 30, 2009 |
Title |
CAPE04 Male Fischer 344 12 hours after CAPE administration, replicate 4 |
Sample type |
RNA |
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Channel 1 |
Source name |
Total RNA from CAPE-treated Male Fischer 344 rat liver labeled with Cyanine-3.
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Organism |
Rattus norvegicus |
Characteristics |
Strain: Fischer-344 Gender: Male Weight: 180-200 g Treatment: CAPE administration and sacrificed 12 h later. Tissue: liver Other: normal liver histology
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Biomaterial provider |
UPEAL CINVESTAV-IPN, Mexico City, Mexico.
|
Treatment protocol |
20 mg/kg of CAPE and sacrificed 12 h later.
|
Growth protocol |
Animals had free access to food (PMI Feeds Inc., Laboratories Diet) and water at all times; each rat consumed approximately 12-15 g of food and 10-15 ml of water per day. After treatment, the animals were transferred to the holding room and kept under controlled conditions of 12 h light/12 h dark, 50% relative humidity, and 21 o C. Animal care followed institutional guidelines for the use of laboratory animals.
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Extracted molecule |
total RNA |
Extraction protocol |
Sacrifice by exsanguination under ether anesthesia. Liver was excised, washed in physiological saline solution, immersed in RNalater and stored at -80ºC. Isolation of total RNA from liver samples following the instructions for Quagen Rneasy mini kit. Quality and quantity were determined by capilary electrophoresis (RNA 6000 nano assay, Agilent)
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Label |
Cy3
|
Label protocol |
Reverse transcription of 5µg total RNA with ChipShotTM reverse transcriptase from Promega. Using Cy3-dCTP from Amersham Biosciences. The reverse transcription was made following the ChipShotTM labeling System instructions (Promega). cDNA purification was made by Promega ChipShotTM labeling Clean-up System, dye incorporation was verified by measuring the absorbance at 260, 550nm.
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Channel 2 |
Source name |
Total RNA from normal liver labeled with Cyanine-5.
|
Organism |
Rattus norvegicus |
Characteristics |
Strain: Fischer-344 Gender: Male Weight: 180-200 g Treatment: None Tissue: liver Other: normal liver
|
Biomaterial provider |
UPEAL CINVESTAV-IPN, Mexico City, Mexico.
|
Treatment protocol |
none
|
Growth protocol |
Animals had free access to food (PMI Feeds Inc., Laboratories Diet) and water at all times; each rat consumed approximately 12-15 g of food and 10-15 ml of water per day. After treatment, the animals were transferred to the holding room and kept under controlled conditions of 12 h light/12 h dark, 50% relative humidity, and 21 o C. Animal care followed institutional guidelines for the use of laboratory animals.
|
Extracted molecule |
total RNA |
Extraction protocol |
Sacrifice by exsanguination under ether anesthesia. Liver was excised, washed in physiological saline solution, immersed in RNalater and stored at -80ºC. Isolation of total RNA from liver samples following the instructions for Quagen Rneasy mini kit. Quality and quantity were determined by capilary electrophoresis (RNA 6000 nano assay, Agilent)
|
Label |
Cy5
|
Label protocol |
Reverse transcription of 5µg total RNA with ChipShotTM reverse transcriptase from Promega. Using Cy5-dCTP from Amersham Biosciences. The reverse transcription was made following the ChipShotTM labeling System instructions (Promega). cDNA purification was made by Promega ChipShotTM labeling Clean-up System, dye incorporation was verified by measuring the absorbance at 260, 650nm.
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|
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Hybridization protocol |
8h at 42ºC in the automatic hybridization machine discovery from Ventana. After hybridization, slides were washed twice in Ribowash buffer for 5 minutes with agitation and then once with 0.1xSSC buffer.
|
Scan protocol |
Scanning with Genepix 400A microarray scanner (Axon instruments). Image analysis was made by Genepix Pro V6 software, each spot was evaluated and selectioned to be analysed by Bioplot software.
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Description |
CAPE is anticarcinogenic compound from propolis bee hives.
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Data processing |
Background substraction with lowess allowed value 10, log transformation and LOWESS normatilization.
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Submission date |
Jul 08, 2008 |
Last update date |
Jul 09, 2008 |
Contact name |
Adriana Marquez-Quiñones |
E-mail(s) |
addy_mq@yahoo.com
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Organization name |
CINVESTAV
|
Department |
Cell Biology
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Lab |
50 Experimental Carcinogenesis
|
Street address |
AV. Instituto Politecnico Nacional No. 2508
|
City |
Mexico |
State/province |
DF |
ZIP/Postal code |
07360 |
Country |
Mexico |
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|
Platform ID |
GPL4979 |
Series (1) |
GSE12030 |
Gene expression profiling of hepatocarcinogenesis initiation in Fischer-344 rats. |
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