LS and MB would like to thank the Luxembourg National Research Fund (FNR) for the support (FNR CORE C15/BM/10406131 grant).
diff --git a/general/datasets/Lsru_cc_st_1219/cases.rtf b/general/datasets/Lsru_cc_st_1219/cases.rtf new file mode 100644 index 0000000..f519f24 --- /dev/null +++ b/general/datasets/Lsru_cc_st_1219/cases.rtf @@ -0,0 +1,5 @@ +CC mice were bred by Dr. Klaus Schughart at the HZI, Braunschweig, Germany.
+ +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).
+ +C57BL/6J, A/J, and DBA/2J were bred by University of Luxembourg.
diff --git a/general/datasets/Lsru_cc_st_1219/citation.rtf b/general/datasets/Lsru_cc_st_1219/citation.rtf new file mode 100644 index 0000000..94560c7 --- /dev/null +++ b/general/datasets/Lsru_cc_st_1219/citation.rtf @@ -0,0 +1 @@ +None as of December 2019
diff --git a/general/datasets/Lsru_cc_st_1219/contributors.rtf b/general/datasets/Lsru_cc_st_1219/contributors.rtf new file mode 100644 index 0000000..c0e81ee --- /dev/null +++ b/general/datasets/Lsru_cc_st_1219/contributors.rtf @@ -0,0 +1,5 @@ +manuel.buttini@uni.lu
+ +lasse.sinkkonen@uni.lu
+ +yujuan.gui@uni.lu
diff --git a/general/datasets/Lsru_cc_st_1219/experiment-design.rtf b/general/datasets/Lsru_cc_st_1219/experiment-design.rtf new file mode 100644 index 0000000..e2c242d --- /dev/null +++ b/general/datasets/Lsru_cc_st_1219/experiment-design.rtf @@ -0,0 +1,3 @@ +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.
+ +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.
diff --git a/general/datasets/Lsru_cc_st_1219/platform.rtf b/general/datasets/Lsru_cc_st_1219/platform.rtf new file mode 100644 index 0000000..a9c7084 --- /dev/null +++ b/general/datasets/Lsru_cc_st_1219/platform.rtf @@ -0,0 +1 @@ +Illumina NextSeq 5000
diff --git a/general/datasets/Lsru_cc_st_1219/processing.rtf b/general/datasets/Lsru_cc_st_1219/processing.rtf new file mode 100644 index 0000000..3a35b8f --- /dev/null +++ b/general/datasets/Lsru_cc_st_1219/processing.rtf @@ -0,0 +1 @@ +Sequencing data processed by Yujuan Gui. Sequencing data were TPM transformed then log2.
diff --git a/general/datasets/Lsru_cc_st_1219/specifics.rtf b/general/datasets/Lsru_cc_st_1219/specifics.rtf new file mode 100644 index 0000000..4609fdf --- /dev/null +++ b/general/datasets/Lsru_cc_st_1219/specifics.rtf @@ -0,0 +1 @@ +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 new file mode 100644 index 0000000..aaf3176 --- /dev/null +++ b/general/datasets/Lsru_cc_st_1219/summary.rtf @@ -0,0 +1,13 @@ +RNA-seq on ventral midbrains, all animals ~ 3-month old.
+ +Collaborative Cross: 1 male per strain for 32 CC strains.
+ +C57BL/6J, A/J, and DBA/2J: The value is the mean of 12 samples (6 males + 6 females).
+ +Team of Investigators:
+ +Lasse Sinkkkonen, Manuel Buttini, Yujuan Gui, and Melanie Thomas at the University of Luxembourg
+ +Data entered into GeneNetwork December 2019 by Arthur Centeno, Robert W. Williams, Yujuan Gui
+ +diff --git a/general/datasets/Lsru_cc_st_1219/tissue.rtf b/general/datasets/Lsru_cc_st_1219/tissue.rtf new file mode 100644 index 0000000..e8f4aff --- /dev/null +++ b/general/datasets/Lsru_cc_st_1219/tissue.rtf @@ -0,0 +1 @@ +
Ventral midbrains
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