|
| Status |
Public on Nov 17, 2014 |
| Title |
Nucleus pulposus_degenerated_4 |
| Sample type |
RNA |
| |
|
| Source name |
Nucleus pulposus tissue,degenerated
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: Nucleus pulposus
condition: Degenerated
idd related diseases: Intervertebral disc herniation
gender: Male
age: 45 years
degeneration grading: Grading Ⅴ
disc level: L5-S1
|
| Treatment protocol |
All the specimens were collected from intervertebral discs of cadaveric donors or patients within 3 hours after anatomy or surgery respectively, following rinsed with phosphate-buffered saline, the nucleus pulposus tissue was carefully collected under stereoscopic microscope.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Control and degenerated samples were prefrozen with liquid nitrogen, ground into powder with mortar, extracted with Trizol reagent according its protocol.
|
| Label |
Cy3
|
| Label protocol |
1ug of total RNA was reverse transcripted into cDNA with T7 Promoter Primer and MMLV-Rtase, and then was labled with T7 polymerase and Cyanine-3-CTP.
|
| |
|
| Hybridization protocol |
The labeled cRNAs were purified with RNeasy mini column and subsequently hybridized onto the Human LncRNA Array v2.0 (8 x 60K, Arraystar).
|
| Scan protocol |
After having washed the slides, the arrays were scanned by the Agilent Scanner G2505C (Agilent Technologies).
|
| Description |
Derived from the lumbar disc of patient with intervertebral disc degeneration
|
| Data processing |
Agilent Feature Extraction software (version 11.0.1.1) was used to analyze acquired array images. Raw signal intensities were normalized in quantile method by GeneSpring GX v11.5.1 (Agilent Technologies), and low intensity LncRNAs and mRNA (at most 4 out of 10 samples have flags in Present or Marginal ) were filtered.
GeneSpring GX v11.5.1 (Agilent Technologies) computed normalized signal intensity. Log2 value of normalized Intensity of each sample were presented in matrix table.
|
| |
|
| Submission date |
Mar 20, 2014 |
| Last update date |
Apr 03, 2015 |
| Contact name |
Hai-Qiang Wang |
| E-mail(s) |
hqwang@sntcm.edu.cn, drwanghq@163.com
|
| Organization name |
Shaanxi University of Chinese Medicine
|
| Department |
Insititute of Integrative Medicine
|
| Street address |
Xixian Avenue, Xixian District
|
| City |
Xi'an |
| ZIP/Postal code |
712046 |
| Country |
China |
| |
|
| Platform ID |
GPL15314 |
| Series (2) |
| GSE56081 |
The long noncoding RNA expression profile of human intervertebral disc degeneration identified by microarray analysis |
| GSE67567 |
Noncoding RNAs in human intervertebral disc degeneration: an integrated microarray study |
|
| Relations |
| Alternative to |
GSM1551032 (identical RNA) |
| Alternative to |
GSM1649712 (identical RNA) |
