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The Design of a Gene Chip for Functional Immunological Studies on a High‐Quality Control Platform
Author(s) -
WAUKAU JILL,
JAILWALA PARTHAV,
WANG YOUMIN,
KHOO HUOYJII,
GHOSH SOUMITRA,
WANG XUJING,
HESSNER MARTIN J.
Publication year - 2003
Publication title -
annals of the new york academy of sciences
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.712
H-Index - 248
eISSN - 1749-6632
pISSN - 0077-8923
DOI - 10.1196/annals.1288.044
Subject(s) - chip , control (management) , quality (philosophy) , computational biology , computer science , biology , artificial intelligence , physics , telecommunications , quantum mechanics
A bstract : We have created an immunology‐related microarray chip containing primarily known genes with well‐studied functional properties. By looking at known genes rather than expressed sequence tags, we hope to gain a better understanding of immunological pathways and how they work. The immunology gene chip contains genes from the following functional categories: T cell genes; B cell genes; dendritic cell genes; chemokine and cytokine genes; apoptosis genes; cell cycle genes; cell interaction genes; general hematology and immunology genes; and adhesion genes. We have also developed a novel three‐color cDNA array platform in which arrays are directly visualized before hybridization, which allows us to select only high‐quality chips for our experiments. In an effort to provide quantitative quality control for each array element as well as the entire chip, we have developed Matarray, a software package for image processing and data acquisition. With Matarray, we have built a quantitative data filtering and normalization scheme that has proved to be more efficient than the existing methods. The list of immunology chip genes is available from the authors.