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An integrative multi-platform analysis for biomarker discovery of osteosarcoma


ABSTRACT: Three osteosarcoma (OS) cell lines (MG-63, Saos-2 and U-2 OS) and 1 osteoblastic cell line (hFOB1.19) were collected for this work. MG-63 was kindly provided by Dr. Agi Grigoriadis from University College London. Saos-2, U-2 OS and hFOB1.19 were purchased from ATCC. All cells used were kept in exponential phase of growth. Total RNA was extracted using the RNeasy Total RNA Isolation kit (QIAGEN). The quality and purity of the products were controlled by Agilent 2100. The final synthesized biotinylated cDNAs were hybridized to Affymetrix GeneChip® U133A 2.0 arrays following the protocol strictly. Arrays were scanned with the Affymetrix scanner 3000. Data analysis was performed by Microarray Suite 5.0 after pre-standard procedure. Link-test on datasets from both SELDI-TOF-MS and microarray high-throughput analysis platforms can accelerate the identification of tumor biomarkers. The results confirmed that CYC-1 with important biomedical function was an effective candidate biomarker for osteosarcoma early diagnosis.

ORGANISM(S): Homo sapiens

SUBMITTER: Long Liu 

PROVIDER: E-GEOD-14789 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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An integrative multi-platform analysis for discovering biomarkers of osteosarcoma.

Li Guodong G   Zhang Wenjuan W   Zeng Huazong H   Chen Lei L   Wang Wenjing W   Liu Jilong J   Zhang Zhiyu Z   Cai Zhengdong Z  

BMC cancer 20090516


<h4>Background</h4>SELDI-TOF-MS (Surface Enhanced Laser Desorption/Ionization-Time of Flight-Mass Spectrometry) has become an attractive approach for cancer biomarker discovery due to its ability to resolve low mass proteins and high-throughput capability. However, the analytes from mass spectrometry are described only by their mass-to-charge ratio (m/z) values without further identification and annotation. To discover potential biomarkers for early diagnosis of osteosarcoma, we designed an inte  ...[more]

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