TY - JOUR
T1 - Spherical self-organizing map as a helpful tool to identify category-specific cell surface markers
AU - Tuoya,
AU - Sugii, Yuh
AU - Satoh, Hitomi
AU - Yu, Dongwei
AU - Matsuura, Yasaburo
AU - Tokutaka, Heizo
AU - Seno, Masaharu
N1 - Funding Information:
The authors thank Dr. Michifumi Tanga and Mr. Koichi Hirayama for their continuous encouragement through the study and Profs. Hiroko Tada and Hidenori Yamada for their helpful discussion. This study was partly supported by the Grant-in-Aid of the consortium for R&D projects for regional revitalization from METI and the Grant-in-Aid for Scientific Research (B) No. 18300164 “Screening of carcinoma cell surface markers and application to the molecular targeting with bionanocapsule” from Japan Society for Promotion of Science.
Copyright:
Copyright 2008 Elsevier B.V., All rights reserved.
PY - 2008/11/14
Y1 - 2008/11/14
N2 - We analyzed gene expression profiles of five tumor cell lines (NB2a, NB41A3, C1300N18, BC3H1, and Neuro2a) derived from a category of nervous system using our originally developed cell surface marker DNA microarray in order to search for tumor-specific cell surface markers common to these cells. To visualize the expression patterns and to extract candidate genes of interest based on the expression profiles of several cell lines, we employed the clustering procedure of spherical self-organizing-map. As the result, three candidates of tumor-specific cell surface markers were picked up when the expression profiles were compared with that from normal brain tissue. RT-qPCR showed the expression of these genes was higher in tumor cells than in normal brain. Here we demonstrated the spherical self-organizing-map analysis should be useful to identify the candidates of cell surface markers common and specific to the group of cells or tissues of interest.
AB - We analyzed gene expression profiles of five tumor cell lines (NB2a, NB41A3, C1300N18, BC3H1, and Neuro2a) derived from a category of nervous system using our originally developed cell surface marker DNA microarray in order to search for tumor-specific cell surface markers common to these cells. To visualize the expression patterns and to extract candidate genes of interest based on the expression profiles of several cell lines, we employed the clustering procedure of spherical self-organizing-map. As the result, three candidates of tumor-specific cell surface markers were picked up when the expression profiles were compared with that from normal brain tissue. RT-qPCR showed the expression of these genes was higher in tumor cells than in normal brain. Here we demonstrated the spherical self-organizing-map analysis should be useful to identify the candidates of cell surface markers common and specific to the group of cells or tissues of interest.
KW - Cell surface marker
KW - DNA microarray
KW - Spherical self-organizing map
KW - Tumor-specific
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U2 - 10.1016/j.bbrc.2008.09.010
DO - 10.1016/j.bbrc.2008.09.010
M3 - Article
C2 - 18793609
AN - SCOPUS:52949130954
SN - 0006-291X
VL - 376
SP - 414
EP - 418
JO - Biochemical and Biophysical Research Communications
JF - Biochemical and Biophysical Research Communications
IS - 2
ER -