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Sample GSM5410985 Query DataSets for GSM5410985
Status Public on Jun 30, 2024
Title kidney samples of controls [73]
Sample type RNA
 
Source name kidney samples of controls
Organism Homo sapiens
Characteristics gender: male
subject status: control
tissue: kidney
Treatment protocol three samples of DKDpatients and three samples of controls were performed the mircoassay analysis.
Extracted molecule total RNA
Extraction protocol On average, 50 7 um-thick cryostat sections were prepared for the extraction of total RNA from tumor cell-rich areas, which were identified by a surgical pathologist (YY) using every 10th section stained by May-Giemsa. Careful attention was paid to the mi
Label 33P
Label protocol Five mg of total RNA was reverse-transcribed using oligo-dT primers (Invitrogen) and SuperScript II reverse transcriptase (Invitrogen) in the presence of 100 mCi of [33P]dCTP (Amersham Bioscience, Piscataway, NJ) according to the instructions for the Gene
 
Hybridization protocol The GeneFilters were prehybridized for 2 h at 51C with 0.5 mg/ml of poly-dA (Invitrogen) and 0.5 mg/ml Cot-1 DNA (Invitrogen) in 10 ml of AlkPhos DIRECT hybridization buffer (Amersham Bioscience) and then hybridized for 17 h at 51C with the denatured radi
Scan protocol The arrays were then exposed for 2 hours to an Imaging Plate and scanned at 25-mm resolution with a BAS5000 phosphoimager (Fuji Photo Film), images of the hybridized arrays were processed with L Process (Fuji Photo Film) and signal intensities quantified
Description Total genomic DNA was spotted on 192 spots for positive control. Nothing was spotted on 40 spot with the aim of negative control. Therefore, a total of 232 spot data were already eliminated from the whole 5584 spot data on the GF201 array.
Data processing The raw data were re-scaled to account for the differences in individual hybridization intensities. We employed a rank-invariant scaling method to select genes (Tseng et al., 2001), which were then used for fitting of a non-linear normalization curve. The normalized_data.txt contains normalized signal intensity.
 
Submission date Jun 30, 2021
Last update date Jun 30, 2024
Contact name Guo Jia
Organization name The First Affiliated Hospital of Zhengzhou University
Street address 1 Jianshe Dong Lu, Erqi District,
City zhengzhou
ZIP/Postal code 450052
Country China
 
Platform ID GPL30330
Series (1)
GSE179171 miRNA expression of kidney samples of DKD patients and controls

Supplementary file Size Download File type/resource
GSM5410985_073.gpr.gz 962.2 Kb (ftp)(http) GPR
Processed data are available on Series record

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