Transcriptome-based systematic identification of extracellular matrix proteins

Proceedings of the National Academy of Sciences of the United States of America

Volumn 105, Issue 35, 2008, Pages 12849-12854

  Manabe, Ri Ichiroh ^a,b   Tsutsui, Ko ^a,b   Yamada, Tomiko ^a   Kimura, Mina ^a   Nakano, Itsuko ^a,b   Shimono, Chisei ^a,b   Sanzen, Noriko ^a,b   Furutani, Yutaka ^a   Fukuda, Tomohiko ^a   Oguri, Yasuko ^a   Shimamoto, Keiko ^a   Kiyozumi, Daiji ^a,b   Sato, Yuya ^b   Sado, Yoshikazu ^c   Senoo, Haruki ^d   Yamashina, Shohei ^e   Fukuda, Shiro ^f   Kawai, Jun ^f   Sugiura, Nobuo ^a   Kimata, Koji ^a   Hayashizaki, Yoshihide ^f   Sekiguchi, Kiyotoshi ^a,b   more..

^a AICHI MEDICAL UNIVERSITY   (Japan)

^b OSAKA UNIVERSITY   (Japan)

^c Shigei Medical Research Institute   (Japan)

^d AKITA UNIVERSITY SCHOOL OF MEDICINE   (Japan)

^e KITASATO UNIVERSITY SCHOOL OF MEDICINE   (Japan)

^f RIKEN YOKOHAMA INSTITUTE   (Japan)

Author keywords

Basement membrane; Body map; Cell adhesion; Glycosaminoglycan; Niche

Indexed keywords

COMPLEMENTARY DNA; GLYCOSAMINOGLYCAN; SCLEROPROTEIN; TRANSCRIPTOME;

ARTICLE; BASEMENT MEMBRANE; CELL ADHESION; CONTROLLED STUDY; HUMAN; HUMAN CELL; IMMUNOHISTOCHEMISTRY; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN INTERACTION; PROTEIN MODIFICATION; SCREENING;

ANIMALS; BASEMENT MEMBRANE; CELL LINE; COMPUTATIONAL BIOLOGY; EPITHELIUM; EXTRACELLULAR MATRIX PROTEINS; GENE EXPRESSION PROFILING; HUMANS; IMMUNOHISTOCHEMISTRY; MICE; MICE, INBRED ICR; PROTEIN TRANSPORT; TOOTH;

EID: 51349089252     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.0803640105     Document Type: Article

References (24)

1. Schönherr E, Hausser H-J (2000) Extracellular matrix and cytokines: A functional unit. Dev Immunol 7:89-101.
2. Chen X, Gumbiner B-M (2006) Crosstalk between different adhesion molecules. Curr Opin Cell Biol 18:572-578.
3. Comoglio PM, Boccaccio C, Trusolino L (2003) Interactions between growth factor receptors and adhesion molecules: Breaking the rules. Curr Opin Cell Biol 15:565-571.
4. Okazaki Y, et al. (2002) Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature 420:563-573.
5. Osada A, et al. (2005) Expression of MAEG, a novel basement membrane protein, in mouse hair follicle morphogenesis. Exp Cell Res 30:148-159.
6. Furutani Y, et al. (2005) Identification and characterization of photomedins: Novel olfactomedin-domain-containing proteins with chondroitin sulphate-E-binding activity. Biochem J 389:675-684.
7. Erickson A-C, Couchman J-R (2000) Still more complexity in mammalian basement membranes. J Histochem Cytochem 48:1291-1306.
8. Thesleff I (2003) Epithelial-mesenchymal signalling regulating tooth morphogenesis. J Cell Sci 116:1647-1648.
9. Fukumoto S, Yamada Y (2005) Extracellular matrix regulates tooth morphogenesis. Connect Tissue Res 46:220-226.
10. Grimmond S-M, et al. (2003) The mouse secretome: Functional classification of the proteins secreted into the extracellular environment. Genome Res 13:1350-1359.
11. Maeda N, et al. (2006) Transcript annotation in FANTOM3: Mouse gene catalog based on physical cDNAs. PLoS Genet 2:498-503.
12. Carninci P, Shiraki T, Mizuno Y, Muramatsu M, Hayashizaki Y (2002) Extra-long first-strand cDNA synthesis. Biotechniques 32:984-985.
13. Scadden D-T (2006) The stem-cell niche as an entity of action. Nature 441:1075-1079.
14. Thesleff I, Keranen S, Jernvall J (2001) Enamel knots as signaling centers linking tooth morphogenesis and odontoblast differentiation. Adv Dent Res 15:14-18.
15. Lesot H, et al. (2001) Epigenetic signals during odontoblast differentiation. Adv Dent Res 15:8-13.
16. Tabata T, Takei Y (2004) Morphogens, their identification and regulation. Development (Cambridge, U.K.) 131:703-712.
17. Allen J-M, et al. (2006) WARP is a novel multimeric component of the chondrocyte pericellular matrix that interacts with perlecan. J Biol Chem 281:7341-7349.
18. Kappler J, et al. (2000) Glycosaminoglycan-binding properties and secondary structure of the C-terminus of netrin-1. Biochem Biophys Res Commun 271:287-291.
19. Charron F, et al. (2003) The morphogen sonic hedgehog is an axonal chemoattractant that collaborates with netrin-1 in midline axon guidance. Cell 113:11-23.
20. Nakai K, Horton P (1999) PSORT:Aprogram for detecting the sorting signals of proteins and predicting their subcellular localization. Trends Biochem Sci 24:34-35.
21. Hirokawa T, Boon-Chieng S, Mitaku S (1998) SOSUI: Classification and secondary structure prediction system for membrane proteins. Bioinformatics 14:378-379.
22. Pearson W-R (2000) Flexible sequence similarity searching with the FASTA3 program package. Methods Mol Biol 132:185-219.
23. Apweiler R, et al. (2000) InterPro-an integrated documentation resource for protein families, domains and functional sites. Bioinformatics 16:1145-1150.
24. Sugiura N, et al. (1993) Preparation of lipid-derivatized glycosaminoglycans to probe a regulatory function of the carbohydrate moieties of proteoglycans in cell-matrix interaction. J Biol Chem 268:15779-15787.