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Sample GSM1958851 Query DataSets for GSM1958851
Status Public on Dec 01, 2015
Title GHS2, biological rep 2
Sample type RNA
Source name Non-coding RNA profiling data from the kidney of GHS rat fed with 13 g/d of a normal calcium diet.
Organism Rattus norvegicus
Characteristics strain: Sprague-Dawley
gender: male
disease state: GHS
diet: normal calcium diet
tissue: kidney
Treatment protocol The colony of GHS rats were created by the selective breeding of male and female SD rats with the highest 24 hour urine excretions (doi: 10.3390/ijms160716313). By the 28th generation, GHS rats stably excreted significantly higher levels of urine calcium than wild-type normal SD rats.
Growth protocol all rats were acclimated at 23℃ on a 12 h light/dark and fed with 13 g/d of a normal calcium diet in the SPF level animal house.
Extracted molecule total RNA
Extraction protocol RNA was extracted using RNeasy Fibrous Tissue kit (Qiagen) according to the manufacturer’s instructions.
Label biotin
Label protocol About 1ug total RNA were polyA tailed and labled with FlashTag™ Biotin HSR Labeling Kit(Affymetrix, Santa Clara, CA, USA).
Hybridization protocol The labled RNA were hybridized for 16 hr at 60 rpm at 48C on Affymetrix miRNA4.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 7G
Description Male GHS rats with a body weight of 250-280g, and fed with 13 g/d of a normal calcium diet (1.2% calcium, 0.65% phosphorus, 0.43% chloride, 0.4% sodium, and 0.24% magnesium per 1 g of food)
Data processing Raw data files were analyzed by using Affymetrix Expression Console with the default miRNA array settings. Raw data were processed and normalized on basis of organism rat using RMA-DABG algorithm.
Submission date Dec 01, 2015
Last update date Dec 01, 2015
Contact name Yuchao LU
Organization name Tongji Hospital of Tongji medical college, Huazhong University of Science &Technology
Department Urology
Street address 1095# Jiefang Avenue
City Wuhan
State/province Hubei
ZIP/Postal code 430030
Country China
Platform ID GPL19117
Series (2)
GSE75541 Analysis of altered miRNA expression profiles in the genetic hypercalciuric stone-forming (GHS) rat compared to normal SD rat
GSE75543 miRNA and mRNA profiles in the genetic hypercalciuric stone-forming (GHS) rat compared to normal SD rat

Data table header descriptions
VALUE Log2 RMA signal

Data table
MIMAT0001619_st 6.050441 P
MIMAT0000547_st 7.160823 P
MIMAT0004637_st 0.7823652 A
MIMAT0000550_st 0.130742 A
MIMAT0017026_st 0.8303076 A
MIMAT0000552_st 4.80828 P
MIMAT0000553_st 9.192876 P
MIMAT0000554_st 8.327259 P
MIMAT0000557_st 1.161045 A
MIMAT0004639_st 0.3450431 A
MIMAT0017028_st 5.675004 P
MIMAT0000560_st 7.241807 P
MIMAT0000561_st 3.683985 P
MIMAT0000562_st 13.78474 P
MIMAT0000563_st 5.974042 P
MIMAT0017029_st 8.362659 P
MIMAT0000564_st 9.392194 P
MIMAT0017031_st 1.006829 A
MIMAT0000566_st 4.417883 P
MIMAT0004641_st 4.202347 P

Total number of rows: 1277

Table truncated, full table size 33 Kbytes.

Supplementary file Size Download File type/resource
GSM1958851_GHS2_miRNA-4_0_.CEL.gz 761.2 Kb (ftp)(http) CEL
Processed data included within Sample table

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