Gene expression profile of human chondrocyte HCS-2/8 cell line by EST sequencing analysis.
Large-scale single-pass sequencing of randomly selected cDNA clones from cell type specific libraries has proven to be a powerful approach for the discovery of novel gene functions, identification of novel gene family members, and definition of gene expression profiles. HCS-2/8 chondrocyte has been used as a cell culture model to study chondrocyte differentiation. Here we performed 3350 single-pass sequencing reactions obtained from the 5' ends of cDNAs from HCS-2/8 cells. To define the expression profiles of HCS-2/8 chondrocytes, we analyzed the identity of these representative cDNA sequences using database searches (BLAST). The sequences represent 1927 unique genes with known function (i.e., unigene clusters), 38 transcripts that are similar to genes with known function, 739 expressed genes with unknown function (i.e., expressed sequence tags), and 18 cDNAs which have not previously been sequenced. Interestingly, many transcripts were expressed from chromosome 12 compared with total genes, while the fewer numbers of cDNAs were derived from genes on chromosomes 14, 18 and Y. The chondrocytic phenotype of HCS-2/8 cells is reflected by abundant expression of genes related to cell structure and motility and the 20 most frequently expressed unigenes reflect a chondrocyte-related gene expression signature. Thus, our data establish a representative set of more than 2000 genes expressed in a chondrocytic cell line. This finding provides a framework for understanding cell growth and differentiation of chondrocytes and their metabolic function in the formation and remodeling of cartilage.
Jung
Youn-Kwan
YK
Department of Biochemistry, School of Medicine, Kyungpook National University, Daegu 700-422, South Korea.
Jeong
Jae-Hwan
JH
Ryoo
Hyun-Mo
HM
Kim
Hyun-Nam
HN
Kim
Yeon-Ju
YJ
Park
Eui-Kyun
EK
Si
Hyun-Jung
HJ
Kim
Shin-Yoon
SY
Takigawa
Masaharu
M
Lee
Byung-Hun
BH
Park
Rang-Woon
RW
Kim
In-San
IS
Choi
Je-Yong
JY
D045744:Cell Line, Tumor; D002813:Chondrosarcoma / Q000235:genetics / Q000473:pathology; D018076:DNA, Complementary / Q000737:chemistry / Q000235:genetics; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling; D015972:Gene Expression Regulation, Neoplastic; D015723:Gene Library; D006801:Humans; D017422:Sequence Analysis, DNA
D018076:DNA, Complementary