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Sample GSM4038300 Query DataSets for GSM4038300
Status Public on Aug 20, 2019
Title Salivary supernatant from MPE patient, biological rep3
Sample type RNA
Source name Salivary supernatant from MPE patient
Organism Homo sapiens
Characteristics disease state: Malignant pleural effusion (MPE)
gender: Male
sample type: Salivary supernatant
Treatment protocol All samples were centrifuged at 3000 × g for 15 minutes at 4°C to get rid of the cells. Only the supernatant was transferred into a 2 mL centrifuge tube. Then, to completely remove the cellular components, a further centrifugation of 12000 × g for 10 minutes at 4°C was followed. The supernatant was transferred into a 2 mL centrifuge tube and stored at -80°C until use.
Growth protocol Before saliva collection, all patients and healthy controls were required to avoid from eating, drinking or smoking for at least 2 hours. At least 3mL saliva was collected from each subject.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (FlashTag™ Biotin HSR RNA Labeling Kit, Affymetrix).
Hybridization protocol 21.5 μL biotin-labeled sample were hybridized for 16 hr at 48℃ on miRNA 4.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned according to the standard Affymetrix protocol. (Affymetrix® Command Console® User Manual (P/N 702569))
Description Gene expression data from salivary supernatant of MPE patients and healthy controls
Data processing Use Expression Console software for data summarization, normalization, and quality control.
Submission date Aug 19, 2019
Last update date Aug 21, 2019
Contact name Yuan Yang
Organization name Beijing Chaoyang Hospital, Capital Medical University
Street address 8 Gongti Nanlu, Chaoyang District
City Beijing
ZIP/Postal code 100020
Country China
Platform ID GPL19117
Series (1)
GSE135947 Salivary microRNA expression data from malignant pleural effusion patients and healthy controls

Data table header descriptions
VALUE MAS5.0 signal intensity

Data table
MIMAT0000001_st 0.311801226
MIMAT0015091_st 0.612768752
MIMAT0000002_st 0.128533697
MIMAT0015092_st 0.408594531
MIMAT0020301_st 0.533727536
MIMAT0000003_st -0.119131835
MIMAT0020302_st 0.607039804
MIMAT0000004_st 0.147028662
MIMAT0000005_st 0.268777401
MIMAT0015093_st 0.619995016
MIMAT0020303_st 0.450550726
MIMAT0000006_st 0.2136273
MIMAT0020304_st -0.016865802
MIMAT0000007_st 0.202446119
MIMAT0015094_st 0.199617118
MIMAT0000008_st -0.000416475
MIMAT0020305_st -0.016865802
MIMAT0000009_st 0.16866777
MIMAT0020306_st 0.428595077
MIMAT0000010_st 0.037850042

Total number of rows: 36353

Table truncated, full table size 987 Kbytes.

Supplementary file Size Download File type/resource
GSM4038300_MPE3_miRNA-4_0_.CEL.gz 583.8 Kb (ftp)(http) CEL
Processed data included within Sample table

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