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Sample GSM5627756 Query DataSets for GSM5627756
Status Public on Oct 15, 2021
Title Orbital adipose/connective tissue from the tissue remains of healthy people after plastic surgery_excised-rep1
Sample type RNA
Source name Orbital adipose/connective tissue from the tissue remains of healthy people after plastic surgery
Organism Homo sapiens
Characteristics diagnosis: Healthy
tissue: Orbital adipose/connective tissue
gender: Female
Stage: Stable period
Growth protocol Liquid nitrogen quick freezing, -80 degrees refrigerator storage.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted and purified using RNeasy micro kit and checked for a RIN number to inspect RNA integration by an Agilent Bioanalyzer 2100.
Label Cy3
Label protocol Total RNA was amplified and labeled by Low Input Quick Amp Labeling Kit, One-Color (Cat.# 5190-2305, Agilent Technologies, Santa Clara, CA, US), following the manufacturer’s instructions.
Hybridization protocol Each slide was hybridized with 1.65μg Cy3-labeled cRNA using Gene Expression Hybridization Kit (Cat.# 5188-5242, Agilent Technologies, Santa Clara, CA, US) in Hybridization Oven (Cat.# G2545A, Agilent Technologies, Santa Clara, CA, US), according to the manufacturer’s instructions. After 17 hours hybridization, slides were washed in staining dishes (Cat.# 121, Thermo Shandon, Waltham, MA, US) with Gene Expression Wash Buffer Kit (Cat.# 5188-5327, Agilent Technologies, Santa Clara, CA, US), followed the manufacturer’s instructions.
Scan protocol Slides were scanned by Agilent Microarray Scanner (Cat#G2565CA, Agilent Technologies, Santa Clara, CA, US) with default settings, Dye channel: Green, Scan resolution=3μm, PMT 100%, 20bit. Data were extracted with Feature Extraction software 10.7 (Agilent Technologies, Santa Clara, CA, US).
Description Control 1
Data processing Raw data were normalized by Quantile algorithm, limma packages in R.
After the original data were normalized with the limma package in the software R, the differential genes were screened using Fold-change (fold of expression difference) and T-test (Student's t-test) statistical methods, and the selection conditions were as follows: 1) Fold Change (linear) =< 0.5 or Fold Change (linear) >= 2. 2) T-test p-value <0.05 or <0.01.
Submission date Oct 14, 2021
Last update date Dec 30, 2021
Contact name Zifan Yue
Phone 15821673019
Organization name Shanghai Changzheng Hospital
Department Ophthalmology
Street address No. 415 Fengyang Road, Hangpu District
City Shanghai
ZIP/Postal code 200001
Country China
Platform ID GPL30862
Series (1)
GSE185952 For lncRNA, circRNA and mRNA sequencing of thyroid-associated ophthalmopathy patients and normal people

Data table header descriptions
VALUE Normalized value

Data table
A_22_P00001056 1.549598369
CUST_25733_PI448380708 5.804524078
CUST_38665_PI448380708 5.280812643
A_23_P409516 8.905063629
CUST_76915_PI448380708 6.730206833
CUST_33809_PI448380708 4.45569567
A_23_P34018 14.98659374
A_24_P188941 14.83909985
CUST_20427_PI448301858 8.126342162
CUST_18337_PI448380708 5.281879905
CUST_1104_PI448301858 4.696263366
CUST_15263_PI448380708 6.600775697
CUST_42174_PI448380708 9.217729304
A_33_P3279969 5.208102384
CUST_105349_PI448380708 6.813601837
CUST_16722_PI448380708 13.16659879
CUST_22908_PI448380708 7.017617604
CUST_24735_PI448380708 1.511448557
A_33_P3317431 13.1392106
CUST_65766_PI448380708 4.008416819

Total number of rows: 173079

Table truncated, full table size 5556 Kbytes.

Supplementary file Size Download File type/resource
GSM5627756_810751_258636010008_S001_GE1_1200_Jun14_1_4.txt.gz 24.6 Mb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table
Processed data are available on Series record

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