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sladunga2 created page: experimental design using hg19 and mm9 bam files
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Sep 09, 2016
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aknecht2
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Chipathlon Notes
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Peak Calling Tools 2016-09-09
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SPP
MACS2
Cexor (in R) ?
JAMM
GEM
BayesPeak (in R) (Cairns, Spyrou et al. 2011)
CCAT (Xu, Handoko et al. 2010)
4 (6) Cell lines or cell types
K562 cells (human) and their mouse analog, MEL
H1-hESC embryonic stem cells (human), and E14 ES (mouse)
Possibly, GM12878 lymphoblastoid cells (human), and their mouse analog, CH12.LX
7 Transcription factors
FOXA
GABP
MYC
MAX
KAT2A
NRSF
STAT
5 Histone modifications
H3K36me3
H3K4me3
H3K27ac
H3K27me3
H3K4me1
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