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| author | Bonface | 2024-02-13 23:52:26 -0600 |
|---|---|---|
| committer | Munyoki Kilyungi | 2024-08-09 13:30:43 +0300 |
| commit | b2feda451ccfbeaed02dce9088d6dd228cf15861 (patch) | |
| tree | 3dd2883524985114070a7770cd2e9f9bd7eb1848 /general/datasets/Jax_d2gm_rseq_log2z_0418 | |
| parent | d029d5d7f8ead1f1de8d318045004a4a6f68f5fb (diff) | |
| download | gn-docs-b2feda451ccfbeaed02dce9088d6dd228cf15861.tar.gz | |
Update dataset RTF Files.
Diffstat (limited to 'general/datasets/Jax_d2gm_rseq_log2z_0418')
5 files changed, 9 insertions, 0 deletions
diff --git a/general/datasets/Jax_d2gm_rseq_log2z_0418/citation.rtf b/general/datasets/Jax_d2gm_rseq_log2z_0418/citation.rtf new file mode 100644 index 0000000..fe14fa7 --- /dev/null +++ b/general/datasets/Jax_d2gm_rseq_log2z_0418/citation.rtf @@ -0,0 +1,3 @@ +<ul>
+ <li>Williams PA, Harder JM, Foxworth NE, Cochran KE et al. Vitamin B3 modulates mitochondrial vulnerability and prevents glaucoma in aged mice. Science 2017 Feb 17;355(6326):756-760. PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/28209901" title="Link to PubMed record">28209901</a></li>
+</ul>
diff --git a/general/datasets/Jax_d2gm_rseq_log2z_0418/experiment-design.rtf b/general/datasets/Jax_d2gm_rseq_log2z_0418/experiment-design.rtf new file mode 100644 index 0000000..5b2f4c9 --- /dev/null +++ b/general/datasets/Jax_d2gm_rseq_log2z_0418/experiment-design.rtf @@ -0,0 +1 @@ +<p>Retinal ganglion cell mRNA from 4 month (young) and 9 month (pre-glaucomatous) DBA/2J mice and age and sex-matched D2-Gpnmb+ controls</p>
diff --git a/general/datasets/Jax_d2gm_rseq_log2z_0418/platform.rtf b/general/datasets/Jax_d2gm_rseq_log2z_0418/platform.rtf new file mode 100644 index 0000000..c967d36 --- /dev/null +++ b/general/datasets/Jax_d2gm_rseq_log2z_0418/platform.rtf @@ -0,0 +1 @@ +<p><a href="https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL17021">GPL17021</a>Illumina HiSeq 2500 (Mus musculus)</p>
diff --git a/general/datasets/Jax_d2gm_rseq_log2z_0418/specifics.rtf b/general/datasets/Jax_d2gm_rseq_log2z_0418/specifics.rtf new file mode 100644 index 0000000..f57a155 --- /dev/null +++ b/general/datasets/Jax_d2gm_rseq_log2z_0418/specifics.rtf @@ -0,0 +1,3 @@ +<p>RNA-Seq log2 Z-Score</p>
+
+<p>In general, the array data that we put in GeneNetwork has been logged and then z normalized, but instead of leaving the mean at 0 and the standard deviation of 1 unit, we shift up to a mean of 8 units and increase the spread by having an standard deviation of 2 units (what we call 2Z + 8 normalized data). This removes negative values from the tables.</p>
diff --git a/general/datasets/Jax_d2gm_rseq_log2z_0418/summary.rtf b/general/datasets/Jax_d2gm_rseq_log2z_0418/summary.rtf new file mode 100644 index 0000000..1cf2292 --- /dev/null +++ b/general/datasets/Jax_d2gm_rseq_log2z_0418/summary.rtf @@ -0,0 +1 @@ +<p>RNA-seq analysis from young and pre-glaucomatous DBA/2J retinal ganglion cells and control (age and sex-matched, D2-Gpnmb+) retinal ganglion cells</p>
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