A comparative analysis of the information content in long and short SAGE libraries |
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| Authors: | Yi-Ju Li Puting Xu Xuejun Qin Donald E Schmechel Christine M Hulette Jonathan L Haines Margaret A Pericak-Vance and John R Gilbert |
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| Institution: | (1) Department of Medicine and Center for Human Genetics, Duke University Medical Center, 27710 Durham, North Carolina, USA;(2) Center for Human Genetics Research Program, Vanderbilt University Medical Center, 37232 Nashville, Tennessee, USA;(3) Department of medicine and Division of Neurology, Duke University Medical Center, 27710 Durham, NC, USA |
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| Abstract: | Background Serial Analysis of Gene Expression (SAGE) is a powerful tool to determine gene expression profiles. Two types of SAGE libraries,
ShortSAGE and LongSAGE, are classified based on the length of the SAGE tag (10 vs. 17 basepairs). LongSAGE libraries are thought
to be more useful than ShortSAGE libraries, but their information content has not been widely compared. To dissect the differences
between these two types of libraries, we utilized four libraries (two LongSAGE and two ShortSAGE libraries) generated from
the hippocampus of Alzheimer and control samples. In addition, we generated two additional short SAGE libraries, the truncated
long SAGE libraries (tSAGE), from LongSAGE libraries by deleting seven 5' basepairs from each LongSAGE tag. |
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