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Sample GSM857424 Query DataSets for GSM857424
Status Public on Jan 07, 2012
Title Intestine_ctrl_day8_1
Sample type RNA
Source name small intestine (jejunum)
Organism Mus musculus
Characteristics strain: C57B/6
genotype/variation: wildtype CTRL
age: 8 weeks
Treatment protocol Tamoxifen gavage to induce conditional knockout
Growth protocol Conditional knockout of Dicer exon 21 & 22 in C57B/6 mice of 8 weeks of age
Extracted molecule total RNA
Extraction protocol miRNeasy Mini (Qiagen)
Label biotin
Label protocol FlashTag Biotin HSR RNA labeling kit
Hybridization protocol Samples were hybridized with GeneChip miRNA array (Affymetrix) and scanned at the Johns Hopkins Microarray Core Facility.
Scan protocol Array scanning was performed according to the manufacturer's instruction (Affymetrix)
Data processing Our data was processed with "Affymetrix miRNA QC Tool version 1.0", within which background subtraction and quantile normalization were done. The summarized probe set data was log2 transformed. The statistical analysis was performed using GeneSpring GX 10.
Submission date Jan 06, 2012
Last update date Jan 07, 2012
Contact name Tai-Chung Huang
Phone 410-502-6665
Organization name Johns Hopkins University School of Medicine
Department Institute of Genetic Medicine
Lab Akhilesh Pandey
Street address 733 N Broadway BRB R560
City Baltimore
State/province MD
ZIP/Postal code 21205
Country USA
Platform ID GPL8786
Series (2)
GSE34909 Differential miRNA expression caused by Dicer knockout in small intestine
GSE34910 Differential expression caused by Dicer knockout in small intestine

Data table header descriptions
VALUE log2 background subtracted and quantile normalized data
p-value (THua-DIC-Cre_TA_ctrl-1a-miRNA_(miRNA-1_0))
Detection (THua-DIC-Cre_TA_ctrl-1a-miRNA_(miRNA-1_0))

Data table
ID_REF VALUE p-value (THua-DIC-Cre_TA_ctrl-1a-miRNA_(miRNA-1_0)) Detection (THua-DIC-Cre_TA_ctrl-1a-miRNA_(miRNA-1_0))
zma-miR408_st 4.401524 0.01095368 TRUE
zma-miR399f_st 4.116149 0.4416583 FALSE
zma-miR399e_st 3.780474 0.9348652 FALSE
zma-miR399d_st 4.000462 0.5199868 FALSE
zma-miR399c_st 3.709652 0.9312439 FALSE
zma-miR399b_st 3.989058 0.5469373 FALSE
zma-miR399a_st 3.951703 0.904285 FALSE
zma-miR396b_st 3.876064 0.5707923 FALSE
zma-miR396a_st 3.806994 0.8373751 FALSE
zma-miR395c_st 3.653632 0.7942374 FALSE
zma-miR395b_st 3.94611 0.6848143 FALSE
zma-miR395a_st 4.007214 0.6057429 FALSE
zma-miR394b_st 4.276563 0.1001878 FALSE
zma-miR394a_st 4.405446 0.06556485 FALSE
zma-miR393_st 3.775043 0.8609888 FALSE
zma-miR319d_st 3.753635 0.9514571 FALSE
zma-miR319c_st 4.209711 0.2151771 FALSE
zma-miR319b_st 4.05255 0.5658085 FALSE
zma-miR319a_st 4.156313 0.4255677 FALSE
zma-miR172e_st 3.75771 0.9320523 FALSE

Total number of rows: 7625

Table truncated, full table size 300 Kbytes.

Supplementary file Size Download File type/resource
GSM857424_THua-DIC-Cre_TA_ctrl-1a-miRNA_miRNA-1_0_.CEL.gz 149.5 Kb (ftp)(http) CEL
GSM857424_THua-DIC-Cre_TA_ctrl-1a-miRNA_miRNA-1_0_.JPG.gz 338.9 Kb (ftp)(http) JPG
Processed data included within Sample table
Processed data are available on Series record

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