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| author | Bonface | 2024-02-09 09:41:28 -0600 |
|---|---|---|
| committer | Munyoki Kilyungi | 2024-08-09 13:30:43 +0300 |
| commit | d029d5d7f8ead1f1de8d318045004a4a6f68f5fb (patch) | |
| tree | 33c7ff40e3f953d030ed08f468f7afb1dfcba9e6 /general/datasets/HEIONCvsCRetILM6_0911/experiment-design.rtf | |
| parent | 769ff7825f5d8d36d541e90534c07f1985899973 (diff) | |
| download | gn-docs-d029d5d7f8ead1f1de8d318045004a4a6f68f5fb.tar.gz | |
Update dataset RTF Files.
Diffstat (limited to 'general/datasets/HEIONCvsCRetILM6_0911/experiment-design.rtf')
| -rw-r--r-- | general/datasets/HEIONCvsCRetILM6_0911/experiment-design.rtf | 12 |
1 files changed, 12 insertions, 0 deletions
diff --git a/general/datasets/HEIONCvsCRetILM6_0911/experiment-design.rtf b/general/datasets/HEIONCvsCRetILM6_0911/experiment-design.rtf new file mode 100644 index 0000000..4fff707 --- /dev/null +++ b/general/datasets/HEIONCvsCRetILM6_0911/experiment-design.rtf @@ -0,0 +1,12 @@ +<p>Expression profiling by array</p>
+
+<p>We used pooled RNA samples of retinas, usually two independent pools--two male, two female pool--for most lines of mice.</p>
+
+<p>All normalization was performed by William E. Orr in the HEI Vision Core Facility</p>
+
+<ol>
+ <li>Computed the log base 2 of each raw signal value</li>
+ <li>Calculated the mean and standard Deviation of each Mouse WG-6 v2.0 array</li>
+ <li>Normalized each array using the formula, 2 (z-score of log2 [intensity]) The result is to produce arrays that have a mean of 8, a variance of 4, and a standard deviation of 2. The advantage is that a two-fold difference in expression level corresponds approximately to a 1 unit difference.</li>
+ <li>computed the mean of the values for the set of microarrays for each strain. Technical replicates were averaged before computing the mean for independent biological samples.</li>
+</ol>
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