|
| Status |
Public on Dec 28, 2019 |
| Title |
syphilitic patients_C6 |
| Sample type |
RNA |
| |
|
| Source name |
Homo sapiens
|
| Organism |
Homo sapiens |
| Characteristics |
condition: syphilitic patients
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction by RNeasy Protect Animal Blood Kit (QIAGEN Cat. no. 73224). RNA purity was checked by optical density of NanoDrop ND-1000 and agarose electrophoresis with the result of A260/A280≧1.8, A260/A230≧ 1.8, no gDNA contamination. RNA integrity was measured by Agilent RNA 6000 Nano Assay (RIN≧8).
|
| Label |
Cy5
|
| Label protocol |
Small RNA population were enriched by (Nanosep100k, Pall Corp.) from 2.5 µg of total RNA. NHS-CyDye (Cy5, Amershan) were direct labeled to Guanine (G) by chemical labeling method using ULS™ microRNA Labeling Kit (EA-038, Kreatech).
|
| |
|
| Hybridization protocol |
The pre-hybridization of HmiOA v7.1 arrays were rehydrated by 100% ethanol following with deionized water. The slides were pre-hybridized with 5x SSPE, 0.1% SDS and 1% BSA at 42℃ for 2 hour. After the pre-hybridization, Cy5-labeled small RNA was hybridize on HmiOAv7.1 in the presentation of the Phalanx OneArray hybridization buffer.
|
| Scan protocol |
The arrays were scanned by Axon GenePix 4000B scanner (635nm power 100 PMT 520-550 ; 532nm power 10, PMT 460) and quantify the fluoresence intensity.
|
| Data processing |
Among the probe triplicates, the median value were selected into signal normalization processed by R program (2.12.1). We filtered out probes that flag <0 in all samples. Porbes that passed the criteria were normalized by 75% media scaling normalization method.
The Matrix value is normalized intensities. Based on the normalized intensities, we calculate average ratios and find significant values for each gene by pairwise comparision (Ranking and hypothesis testing).
|
| |
|
| Submission date |
Dec 27, 2019 |
| Last update date |
Dec 28, 2019 |
| Contact name |
li xue fei |
| E-mail(s) |
[email protected]
|
| Phone |
18122728380
|
| Organization name |
SMUDH
|
| Lab |
li xue fei
|
| Street address |
Wushang Road No.483
|
| City |
Guangzhou |
| State/province |
Guangdong |
| ZIP/Postal code |
510640 |
| Country |
China |
| |
|
| Platform ID |
GPL27938 |
| Series (1) |
| GSE142676 |
MicroRNA expression profiling of peripheral blood mononuclear cells associated with syphilis |
|
