TY  - JOUR
A1  - Nelander, Sven
A1  - Mostad, Petter
A1  - Lindahl, Per
T1  - Prediction of Cell Type-Specific Gene Modules: Identification and Initial Characterization of a Core Set of Smooth Muscle-Specific Genes
Y1  - 2003/08/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 1838 
EP  - 1854 
DO  - 10.1101/gr.1197303 
VL  - 13 
IS  - 8 
UR  - http://genome.cshlp.org/content/13/8/1838.abstract 
N2  - Genes that are expressed in the same subset of cells potentially constitute  a module regulated by shared cis-regulatory elements and a distinct  set of transcription factors. Identifying such units is an important entry  point to the molecular study of cell differentiation. We developed a general  method to classify cell type-specific genes from expressed sequence tag (EST)  data, and we optimized it for identification of smooth muscle cell  (SMC)-specific genes. Expression profiles were derived from the quantitative  distribution of EST data in mouse, and genes were classified based on their  profile similarity to known reference genes, in this case smooth muscle myosin  heavy chain. A large majority (>90%) of known SMC-specific genes were  identified, together with novel candidates. Extensive experimental validation  confirmed SMC-specific expression of candidates, for example, lipoma preferred  partner (LPP) and a novel SMC-specific putative monoamine oxidase, SMAO. Our  method performed considerably better than other computational methods in an  objective cross validation comparison. The total number of SMC-specific genes  is estimated to be ∼50. 
ER  -