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 Rv1360/-:

update plot	correlation	link to info on gene
Rv3327/-	(cc=0.5271)	info on Rv3327/-
Rv3219/whiB1	(cc=0.5142)	info on Rv3219/whiB1
Rv0999/-	(cc=0.5)	info on Rv0999/-
Rv0373c/-	(cc=0.4694)	info on Rv0373c/-
Rv3453/-	(cc=0.451)	info on Rv3453/-
Rv3775/lipE	(cc=0.4471)	info on Rv3775/lipE
Rv1860/apa	(cc=0.439)	info on Rv1860/apa
Rv0129c/fbpC	(cc=0.438)	info on Rv0129c/fbpC
Rv0862c/-	(cc=0.4371)	info on Rv0862c/-
Rv0361/-	(cc=0.4267)	info on Rv0361/-

Correlation of Rv1360/- with Rv0373c/-

Normalized LFCs for Rv1360/-:
(description and provenance of datasets)

	Rv1360/-	Rv0373c/-
Fe_supp_jason_reseq	-0.175	-0.676
low_pH_jason_reseq	-0.99	0.775
NO_jason_reseq	-0.32	0.656
B6_jason_reseq	0.169	-0.535
MHCII_jason_reseq	0.366	-0.119
Isoniazid02	-1.455	-0.31
Rifampicin4	-2.434	-0.276
Ethambutol3	-0.929	-0.231
Meropenem3	1.791	1.324
Vancomycin16	-1.937	-0.162
Rv2680_day32	0.253	0.836
H37Rv_KO_MarP	0.368	-0.059
hypoxia_3wks	0.235	0.307
hypoxia_6wks	0.28	-0.054
glycerol	0.281	0.391
cholesterol	2.114	5.178
AJ	0.2	-0.261
Bibs02	0.268	0.126
Bibs02c	0.47	0.611
BL6	-0.114	0.106
BL6a	0.296	0.0
BXD01	-0.543	0.213
BXD010	-0.187	0.651
BXD011	-0.125	0.319
BXD03	0.031	-0.352
BXD04	-0.326	-0.163
BXD05	0.183	0.714
BXD06	-0.195	-0.098
BXD07	0.0	-0.269
BXD08	-0.292	-0.149
BXD09	-0.234	-0.158
CAST	0.32	0.195
CCcont	0.109	0.151
DS01	0.445	-0.086
DS02	0.093	-0.039
DS04	0.072	0.067
DS0c	0.206	0.633
GP01	-0.235	0.017
GP02	0.366	1.31
GP0c	-0.086	0.543
NOD	0.488	0.19
NZO	-0.208	0.069
PWK	0.408	0.82
H37Rv_KO_CtpC	-0.317	-0.577
H37Rv_KO_CtpD	-0.061	0.559
H37Rv_KO_Rv1272	-0.527	0.252
H37Rv_KO_SugABC	0.172	0.471
H37Rv_KO_MbtN	-0.208	-0.502
Trans05	-0.07	0.515
macrophage_unactivated	-0.035	0.357
IL1	-0.033	-0.27
Rapamycin	0.064	0.512
Tcell	-0.081	-0.196
GMCSF	0.576	0.298
IFNab	-0.323	0.175
IFNg	0.249	0.446
IFNg_GMCSF1	-0.496	-0.386
Rv1432_day32	-0.064	-0.505
Rv1565c_day32	0.114	0.58
secA2_input	0.016	-0.348
delta_Rv3594	0.497	0.567
delta_Rv3717	-0.164	0.0
delta_Rv3811	-0.065	0.0
delta_Rv0954	0.516	-0.168
PonA1	0.804	-0.422
EccD1_KO	0.329	-0.253
EspI_KO	0.034	-0.451
PE35_KO	0.455	-0.648
PPE68_KO	0.115	-0.573
glycerol2	0.034	-0.171
lignocerate	0.132	-0.149
oleate	-0.106	-0.085
phosphatidylcholine	0.092	-0.028
acetate	-0.366	0.304
glucAc	-0.192	0.059
Rv0950ko	0.121	-0.338
Rv1096ko	-0.38	0.374
Rv3684ko	-0.033	0.468
delta_otsA_trehalose	-0.424	-1.609