G protein-coupled receptor genes in the FANTOM2 database

Yuka Kawasawa, Louise M. McKenzie, David P. Hill, Hidemasa Bono, Takahiro Arakawa, Piero Carninci, Jun Kawai, Yoshihide Hayashizaki, Masashi Yanagisawa

Research output: Contribution to journalArticle

25 Citations (Scopus)

Abstract

G protein-coupled receptors (GPCRs) comprise the largest family of receptor proteins in mammals and play important roles in many physiological and pathological processes. Gene expression of GPCRs is temporally and spatially regulated, and many splicing variants are also described. In many instances, different expression profiles of GPCR gene are accountable for the changes of its biological function. Therefore, it is intriguing to assess the complexity of the transcriptome of GPCRs in various mammalian organs. In this study, we took advantage of the FANTOM2 (Functional Annotation Meeting of Mouse cDNA 2) project, which aimed to collect full-length cDNAs inclusively from mouse tissues, and found 410 candidate GPCR cDNAs. Clustering of these clones into transcriptional units (TUs) reduced this number to 213. Out of these, 165 genes were represented within the known 308 GPCRs in the Mouse Genome Informatics (MGI) resource. The remaining 48 genes were new to mouse, and 14 of them had no clear mammalian ortholog. To dissect the detailed characteristics of each transcript, tissue distribution pattern and alternative splicing were also ascertained. We found many splicing variants of GPCRs that may have a relevance to disease occurrence. In addition, the difficulty in cloning tissue-specific and infrequently transcribed GPCRs is discussed further.

Original languageEnglish (US)
Pages (from-to)1466-1477
Number of pages12
JournalGenome Research
Volume13
Issue number6 B
DOIs
StatePublished - Jun 1 2003

Fingerprint

G-Protein-Coupled Receptors
Complementary DNA
Databases
Genes
Physiological Phenomena
Informatics
Alternative Splicing
Tissue Distribution
Pathologic Processes
Transcriptome
Cluster Analysis
Organism Cloning
Mammals
Clone Cells
Genome
Gene Expression

ASJC Scopus subject areas

  • Genetics

Cite this

Kawasawa, Y., McKenzie, L. M., Hill, D. P., Bono, H., Arakawa, T., Carninci, P., ... Yanagisawa, M. (2003). G protein-coupled receptor genes in the FANTOM2 database. Genome Research, 13(6 B), 1466-1477. https://doi.org/10.1101/gr.1087603

G protein-coupled receptor genes in the FANTOM2 database. / Kawasawa, Yuka; McKenzie, Louise M.; Hill, David P.; Bono, Hidemasa; Arakawa, Takahiro; Carninci, Piero; Kawai, Jun; Hayashizaki, Yoshihide; Yanagisawa, Masashi.

In: Genome Research, Vol. 13, No. 6 B, 01.06.2003, p. 1466-1477.

Research output: Contribution to journalArticle

Kawasawa, Y, McKenzie, LM, Hill, DP, Bono, H, Arakawa, T, Carninci, P, Kawai, J, Hayashizaki, Y & Yanagisawa, M 2003, 'G protein-coupled receptor genes in the FANTOM2 database', Genome Research, vol. 13, no. 6 B, pp. 1466-1477. https://doi.org/10.1101/gr.1087603
Kawasawa Y, McKenzie LM, Hill DP, Bono H, Arakawa T, Carninci P et al. G protein-coupled receptor genes in the FANTOM2 database. Genome Research. 2003 Jun 1;13(6 B):1466-1477. https://doi.org/10.1101/gr.1087603
Kawasawa, Yuka ; McKenzie, Louise M. ; Hill, David P. ; Bono, Hidemasa ; Arakawa, Takahiro ; Carninci, Piero ; Kawai, Jun ; Hayashizaki, Yoshihide ; Yanagisawa, Masashi. / G protein-coupled receptor genes in the FANTOM2 database. In: Genome Research. 2003 ; Vol. 13, No. 6 B. pp. 1466-1477.
@article{57e5f839b5734aedbe4f2346922c0591,
title = "G protein-coupled receptor genes in the FANTOM2 database",
abstract = "G protein-coupled receptors (GPCRs) comprise the largest family of receptor proteins in mammals and play important roles in many physiological and pathological processes. Gene expression of GPCRs is temporally and spatially regulated, and many splicing variants are also described. In many instances, different expression profiles of GPCR gene are accountable for the changes of its biological function. Therefore, it is intriguing to assess the complexity of the transcriptome of GPCRs in various mammalian organs. In this study, we took advantage of the FANTOM2 (Functional Annotation Meeting of Mouse cDNA 2) project, which aimed to collect full-length cDNAs inclusively from mouse tissues, and found 410 candidate GPCR cDNAs. Clustering of these clones into transcriptional units (TUs) reduced this number to 213. Out of these, 165 genes were represented within the known 308 GPCRs in the Mouse Genome Informatics (MGI) resource. The remaining 48 genes were new to mouse, and 14 of them had no clear mammalian ortholog. To dissect the detailed characteristics of each transcript, tissue distribution pattern and alternative splicing were also ascertained. We found many splicing variants of GPCRs that may have a relevance to disease occurrence. In addition, the difficulty in cloning tissue-specific and infrequently transcribed GPCRs is discussed further.",
author = "Yuka Kawasawa and McKenzie, {Louise M.} and Hill, {David P.} and Hidemasa Bono and Takahiro Arakawa and Piero Carninci and Jun Kawai and Yoshihide Hayashizaki and Masashi Yanagisawa",
year = "2003",
month = "6",
day = "1",
doi = "10.1101/gr.1087603",
language = "English (US)",
volume = "13",
pages = "1466--1477",
journal = "Genome Research",
issn = "1088-9051",
publisher = "Cold Spring Harbor Laboratory Press",
number = "6 B",

}

TY - JOUR

T1 - G protein-coupled receptor genes in the FANTOM2 database

AU - Kawasawa, Yuka

AU - McKenzie, Louise M.

AU - Hill, David P.

AU - Bono, Hidemasa

AU - Arakawa, Takahiro

AU - Carninci, Piero

AU - Kawai, Jun

AU - Hayashizaki, Yoshihide

AU - Yanagisawa, Masashi

PY - 2003/6/1

Y1 - 2003/6/1

N2 - G protein-coupled receptors (GPCRs) comprise the largest family of receptor proteins in mammals and play important roles in many physiological and pathological processes. Gene expression of GPCRs is temporally and spatially regulated, and many splicing variants are also described. In many instances, different expression profiles of GPCR gene are accountable for the changes of its biological function. Therefore, it is intriguing to assess the complexity of the transcriptome of GPCRs in various mammalian organs. In this study, we took advantage of the FANTOM2 (Functional Annotation Meeting of Mouse cDNA 2) project, which aimed to collect full-length cDNAs inclusively from mouse tissues, and found 410 candidate GPCR cDNAs. Clustering of these clones into transcriptional units (TUs) reduced this number to 213. Out of these, 165 genes were represented within the known 308 GPCRs in the Mouse Genome Informatics (MGI) resource. The remaining 48 genes were new to mouse, and 14 of them had no clear mammalian ortholog. To dissect the detailed characteristics of each transcript, tissue distribution pattern and alternative splicing were also ascertained. We found many splicing variants of GPCRs that may have a relevance to disease occurrence. In addition, the difficulty in cloning tissue-specific and infrequently transcribed GPCRs is discussed further.

AB - G protein-coupled receptors (GPCRs) comprise the largest family of receptor proteins in mammals and play important roles in many physiological and pathological processes. Gene expression of GPCRs is temporally and spatially regulated, and many splicing variants are also described. In many instances, different expression profiles of GPCR gene are accountable for the changes of its biological function. Therefore, it is intriguing to assess the complexity of the transcriptome of GPCRs in various mammalian organs. In this study, we took advantage of the FANTOM2 (Functional Annotation Meeting of Mouse cDNA 2) project, which aimed to collect full-length cDNAs inclusively from mouse tissues, and found 410 candidate GPCR cDNAs. Clustering of these clones into transcriptional units (TUs) reduced this number to 213. Out of these, 165 genes were represented within the known 308 GPCRs in the Mouse Genome Informatics (MGI) resource. The remaining 48 genes were new to mouse, and 14 of them had no clear mammalian ortholog. To dissect the detailed characteristics of each transcript, tissue distribution pattern and alternative splicing were also ascertained. We found many splicing variants of GPCRs that may have a relevance to disease occurrence. In addition, the difficulty in cloning tissue-specific and infrequently transcribed GPCRs is discussed further.

UR - http://www.scopus.com/inward/record.url?scp=0037673446&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=0037673446&partnerID=8YFLogxK

U2 - 10.1101/gr.1087603

DO - 10.1101/gr.1087603

M3 - Article

C2 - 12819145

AN - SCOPUS:0037673446

VL - 13

SP - 1466

EP - 1477

JO - Genome Research

JF - Genome Research

SN - 1088-9051

IS - 6 B

ER -