|
| Status |
Public on Apr 07, 2021 |
| Title |
C1: Healthy colon, biological rep.1 |
| Sample type |
RNA |
| |
|
| Source name |
Colon, normal
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57Bl/6
tissue: Colon
treatment regime: Untreated
|
| Treatment protocol |
Azoxymethane (AOM) was given a single (10mg/kg B.wt) intraperitonielly at day 0 and three bouts of 5% DSS at days 5-10, 25-30, 45-50. At day 140, the mice were sacrificed. Cardamonin was administered orally, at a dose of 10mg/kg, 5 times every week for simultaneous group. And treatment started at a dose of 10mg/kg, 5times every week from 16th week to 30th week for the ''after tumor formation''group.
|
| Growth protocol |
Colon collected from mice treated with AOM+DSS, followed by Cardamonin simultaneously treated or after tumor development. Colon from normal, healthy mice were used as control.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Colon dissected and rinsed in 1X PBS, followed by snap freezing in liquid nitrogen. This was ground in liquid nitrogen, and mirVana miRNA isolation kit was used for the subsequent steps.
|
| Label |
Biotin
|
| Label protocol |
Total RNA was used for the reaction, Poly(A) tailing was performed followed by biotin labelling of the RNA. This was done by Flash Tag Biotin HSR labelling kit by Affymetrix
|
| |
|
| Hybridization protocol |
Samples were hybridised using Affymetrix hybridisation kit. Briefly, biotin labelled sample and hybridisation master mix were incubated at 99oC for 5 mins, then at 45oC for 5 mins. 130ul was injected into the array and both septa covered with tough spots. Loaded into hybridisation oven and incubated at 48oC, 60rpm for 16-18hrs
|
| Scan protocol |
The chips were then scanned with an Affymetrix GeneChip Scanner 3000 7G (Affymetrix, Santa Clara, California, United States).
|
| Description |
miRNA expression form normal colon
|
| Data processing |
The Data generated from the scan was then analyzed using the Bioconductor packages (Oligo, limma)
|
| |
|
| Submission date |
Oct 22, 2018 |
| Last update date |
Apr 07, 2021 |
| Contact name |
Dr. Harikumar K B |
| E-mail(s) |
harikumar@rgcb.res.in
|
| Phone |
+91-471-2529-596
|
| Organization name |
Rajiv Gandhi centre for Biotechnology
|
| Department |
Cancer Research Program
|
| Lab |
CRP-7
|
| Street address |
Poojappura
|
| City |
Thycaud |
| State/province |
Kerala |
| ZIP/Postal code |
695 014 |
| Country |
India |
| |
|
| Platform ID |
GPL19117 |
| Series (1) |
| GSE121608 |
Cardamonin repel colitis and its associated colorectal cancer |
|
