Update dataset RTF Files.

8 files changed, 26 insertions, 0 deletions

diff --git a/general/datasets/LSRU_CC_ST_1219/acknowledgment.rtf b/general/datasets/LSRU_CC_ST_1219/acknowledgment.rtf
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+<p>LS and MB would like to thank the Luxembourg National Research Fund (FNR) for the support &nbsp;(FNR CORE C15/BM/10406131 grant).</p>

diff --git a/general/datasets/LSRU_CC_ST_1219/cases.rtf b/general/datasets/LSRU_CC_ST_1219/cases.rtf
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+<p>CC mice were bred by Dr. Klaus Schughart at the HZI, Braunschweig, Germany.</p>

+

+<p>Note: Only one of 8 - 10 male samples was processed for RNA-seq (unilateral dissection of VMB). Luxembourg team also has 8 - 10 female samples. 16 to 20 complete brain hemispheres fixed in paraformaldehyde for 48 hours and then transferred to PBS with sodium azide (now stored at 4 degree Celsius at BT1, 7 ave des Hauts-Fourneaux, L-4362 Esch-sur-Alzette).</p>

+

+<p>C57BL/6J, A/J, and DBA/2J were bred by University of Luxembourg.</p>

diff --git a/general/datasets/LSRU_CC_ST_1219/experiment-design.rtf b/general/datasets/LSRU_CC_ST_1219/experiment-design.rtf
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+<p>Single-end 75bp reads at a depth of about 30 million reads/sample. Processed by Yujuan Gui using both RPKM and TPM. Log2 of TPM+1 uploaded into GeneNetwork Dec 2019 by Arthur Centeno and Robert W. Williams.</p>

+

+<p>Half of the C57BL/6J and A/J were sequenced in Genomics Core Facility - EMBL Heidelberg with single-end 80bp reads at a depth of about 30 million reads/sample.</p>

diff --git a/general/datasets/LSRU_CC_ST_1219/platform.rtf b/general/datasets/LSRU_CC_ST_1219/platform.rtf
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+<p>Illumina NextSeq 5000</p>

diff --git a/general/datasets/LSRU_CC_ST_1219/processing.rtf b/general/datasets/LSRU_CC_ST_1219/processing.rtf
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+<p>Sequencing data processed by Yujuan Gui.&nbsp;Sequencing data were TPM transformed then log2.</p>

diff --git a/general/datasets/LSRU_CC_ST_1219/specifics.rtf b/general/datasets/LSRU_CC_ST_1219/specifics.rtf
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+CC
\ No newline at end of file
diff --git a/general/datasets/LSRU_CC_ST_1219/summary.rtf b/general/datasets/LSRU_CC_ST_1219/summary.rtf
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+<p>RNA-seq on ventral midbrains, all animals ~ 3-month old.</p>

+

+<p>Collaborative Cross: 1 male per strain for 32 CC strains.</p>

+

+<p>C57BL/6J, A/J, and DBA/2J:&nbsp;The value is the mean of 12 samples (6 males + 6 females).</p>

+

+<p>Team of Investigators:</p>

+

+<p>Lasse Sinkkkonen, Manuel Buttini, Yujuan Gui, and Melanie Thomas&nbsp;at the&nbsp;University of Luxembourg</p>

+

+<p>Data entered into GeneNetwork December 2019 by Arthur Centeno, Robert W. Williams, Yujuan Gui</p>

+

+<p>&nbsp;</p>

diff --git a/general/datasets/LSRU_CC_ST_1219/tissue.rtf b/general/datasets/LSRU_CC_ST_1219/tissue.rtf
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+<p>Ventral midbrains</p>