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rinnlab
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BrainMap
Mouse lncRNA Brain Map Project Data and Analysis
http://www.pnas.org/content/112/22/6855.abstract
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new names in gtf file?
#16
agroff11
opened
10 years ago
0
hox genes and hox cluster lincRNAs in these datasets? (expression period, and/or de?)
#15
agroff11
closed
10 years ago
0
Hox gene expression and differential regulation in E14.5 or Adult?
#14
Loyale
opened
10 years ago
4
Specifically look at expression of HoxB7 in Tug1 KO lines (see paper below)
#13
Loyale
opened
10 years ago
1
how KOs made compare to lacZ
#12
agroff11
opened
10 years ago
0
DE gene list aggregate
#11
agroff11
opened
10 years ago
5
Eldr and Tug1 differential association with Lhx6 and 5HT interneurons
#10
Loyale
closed
10 years ago
1
linc-Cox2 look for any association with prostaglandin(s) genes or pathways by GSEA or DE (heatmaps of prostaglandin genes in KOvWT)
#9
Loyale
opened
10 years ago
2
Make Lhx6- and 5HT-specific gene sets for GSEA testing
#8
Loyale
closed
10 years ago
2
occasional track errors (linc-cox2 adult, embryonic, and haunt adult)
#7
agroff11
opened
10 years ago
1
heatmap for every bamfile digital genotyping
#6
agroff11
opened
10 years ago
0
Gender bias!!?!
#5
agroff11
opened
10 years ago
2
Include overlapping / adjacent PC genes in track plots
#4
Loyale
opened
10 years ago
0
GSEA on neural subtype gene sets (After Giulio and Loyal curation of sets)
#3
Loyale
opened
10 years ago
0
Explicitly state in report whether ratios (for GSEA in particular) are WT vs KO or KO vs WT.
#2
Loyale
closed
10 years ago
2
labRow=FALSE for all heatmaps
#1
Loyale
closed
10 years ago
0