TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0147/-:

update plot	correlation	link to info on gene
Rv1411c/lprG	(cc=0.4297)	info on Rv1411c/lprG
Rv1780/-	(cc=0.4268)	info on Rv1780/-
Rv3784/-	(cc=0.4248)	info on Rv3784/-
Rv1892/-	(cc=0.416)	info on Rv1892/-
Rv2351c/plcA	(cc=0.4046)	info on Rv2351c/plcA
Rv1885c/-	(cc=0.4036)	info on Rv1885c/-
Rv0207c/-	(cc=0.3923)	info on Rv0207c/-
Rv3486/-	(cc=0.3898)	info on Rv3486/-
Rv0473/-	(cc=0.3815)	info on Rv0473/-
Rv0476/-	(cc=0.3814)	info on Rv0476/-

Correlation of Rv0147/- with Rv1885c/-

Normalized LFCs for Rv0147/-:
(description and provenance of datasets)

	Rv0147/-	Rv1885c/-
Fe_supp_jason_reseq	0.919	-0.204
low_pH_jason_reseq	-1.782	-0.37
NO_jason_reseq	-1.129	-0.221
B6_jason_reseq	-0.01	-0.127
MHCII_jason_reseq	1.187	0.283
Isoniazid02	0.639	-0.115
Rifampicin4	-0.777	-0.574
Ethambutol3	0.246	0.129
Meropenem3	0.262	0.028
Vancomycin16	-0.584	-0.732
Rv2680_day32	0.786	-0.112
H37Rv_KO_MarP	0.13	0.109
hypoxia_3wks	1.069	0.08
hypoxia_6wks	0.9	-0.263
glycerol	1.162	-0.252
cholesterol	0.14	-0.495
AJ	0.355	0.148
Bibs02	-0.318	-0.044
Bibs02c	0.194	-0.341
BL6	-0.157	0.592
BL6a	0.066	-0.125
BXD01	0.268	-0.012
BXD010	0.521	-0.281
BXD011	-0.06	0.275
BXD03	0.352	0.223
BXD04	0.385	0.864
BXD05	0.15	0.115
BXD06	0.0	0.0
BXD07	0.133	0.346
BXD08	0.287	0.079
BXD09	-0.073	0.09
CAST	-0.459	0.01
CCcont	-0.013	0.3
DS01	-1.193	-0.546
DS02	0.235	-0.503
DS04	-1.649	-0.994
DS0c	-0.965	-0.104
GP01	0.615	-0.087
GP02	0.963	0.512
GP0c	0.729	0.172
NOD	-0.029	0.308
NZO	0.465	0.24
PWK	0.959	0.054
H37Rv_KO_CtpC	-0.135	0.418
H37Rv_KO_CtpD	0.132	0.298
H37Rv_KO_Rv1272	0.255	0.94
H37Rv_KO_SugABC	-0.069	0.908
H37Rv_KO_MbtN	1.51	0.927
Trans05	0.593	1.173
macrophage_unactivated	0.11	-0.019
IL1	-1.02	-0.839
Rapamycin	0.288	-0.298
Tcell	-0.795	-0.098
GMCSF	0.119	0.121
IFNab	1.366	0.157
IFNg	-0.494	-0.08
IFNg_GMCSF1	-0.597	0.317
Rv1432_day32	0.619	0.297
Rv1565c_day32	0.693	-0.608
secA2_input	0.094	-0.282
delta_Rv3594	-0.038	0.219
delta_Rv3717	0.233	-0.128
delta_Rv3811	0.175	0.355
delta_Rv0954	-0.173	-0.083
PonA1	-0.5	-0.751
EccD1_KO	-0.562	0.474
EspI_KO	-0.756	-0.622
PE35_KO	-0.951	0.175
PPE68_KO	-0.934	-0.09
glycerol2	1.251	0.233
lignocerate	0.857	0.304
oleate	0.571	-0.238
phosphatidylcholine	0.472	-0.05
acetate	0.346	0.141
glucAc	0.194	0.311
Rv0950ko	0.075	0.19
Rv1096ko	-0.377	-0.033
Rv3684ko	-0.357	-0.684
delta_otsA_trehalose	-0.577	-0.217