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miR-AT! User’s Manual
v1.6
Table of Contents
1 WHAT IS MIR-AT! ?...................................................................................................................................... 1
2 SEARCHING.................................................................................................................................................... 2
3 RESULTS......................................................................................................................................................... 4
3.1 Gene and Transcript Identifiers....................................................................................................................4
3.2 Binding Sites Detail.....................................................................................................................................5
3.3 Score Distributions......................................................................................................................................6
3.4 Functional Annotation using DAVID........................................................................................................... 7
3.5 Gene Expression Upload.............................................................................................................................. 7
3.6 Results Download........................................................................................................................................ 9
4 CLUSTERING................................................................................................................................................ 10
4.1 Similarity Metrics...................................................................................................................................... 10
4.2 Viewing Clustering Results with Java TreeView......................................................................................... 13
4.3 Saving Clustering Results with Java TreeView...........................................................................................16
5 TROUBLESHOOTING.................................................................................................................................. 19
6 VERSION HISTORY..................................................................................................................................... 20
7 REFERENCES............................................................................................................................................... 22
8 ACKNOWLEGEMENTS & PERMISSIONS................................................................................................ 23
9 APPENDIX A.................................................................................................................................................26
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