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 Rv1667c/-:

update plot	correlation	link to info on gene
Rv2730/-	(cc=0.4737)	info on Rv2730/-
Rv2568c/-	(cc=0.4511)	info on Rv2568c/-
Rv2134c/-	(cc=0.4495)	info on Rv2134c/-
Rv1886c/fbpB	(cc=0.4388)	info on Rv1886c/fbpB
Rv1364c/-	(cc=0.4356)	info on Rv1364c/-
Rv2886c/-	(cc=0.4301)	info on Rv2886c/-
Rv3818/-	(cc=0.4265)	info on Rv3818/-
Rv3305c/amiA1	(cc=0.4225)	info on Rv3305c/amiA1
Rv0999/-	(cc=0.4204)	info on Rv0999/-
Rv3050c/-	(cc=0.4194)	info on Rv3050c/-

Correlation of Rv1667c/- with Rv1886c/fbpB

Normalized LFCs for Rv1667c/-:
(description and provenance of datasets)

	Rv1667c/-	Rv1886c/fbpB
Fe_supp_jason_reseq	0.344	-0.499
low_pH_jason_reseq	-0.241	-0.581
NO_jason_reseq	0.176	-0.202
B6_jason_reseq	-1.077	-0.563
MHCII_jason_reseq	0.53	0.038
Isoniazid02	0.473	0.631
Rifampicin4	-0.658	-1.882
Ethambutol3	-0.213	0.107
Meropenem3	-0.404	-0.234
Vancomycin16	-0.464	0.093
Rv2680_day32	1.135	0.745
H37Rv_KO_MarP	-0.538	0.539
hypoxia_3wks	0.861	1.085
hypoxia_6wks	0.491	1.002
glycerol	1.321	-0.184
cholesterol	0.01	0.668
AJ	0.297	-0.331
Bibs02	0.709	0.823
Bibs02c	0.182	0.778
BL6	0.369	0.826
BL6a	0.479	0.848
BXD01	0.428	0.159
BXD010	0.363	0.251
BXD011	0.54	0.144
BXD03	0.407	-0.171
BXD04	0.863	0.13
BXD05	0.373	0.305
BXD06	0.651	0.216
BXD07	0.9	0.309
BXD08	1.084	0.355
BXD09	0.462	0.148
CAST	-0.239	-0.873
CCcont	0.889	0.579
DS01	-0.091	-0.033
DS02	0.578	-0.452
DS04	0.236	-0.226
DS0c	0.096	0.476
GP01	1.166	1.114
GP02	0.274	0.382
GP0c	0.689	1.009
NOD	0.584	-0.792
NZO	0.131	-0.065
PWK	-0.091	-1.02
H37Rv_KO_CtpC	0.153	0.815
H37Rv_KO_CtpD	0.444	1.066
H37Rv_KO_Rv1272	1.011	0.965
H37Rv_KO_SugABC	-0.207	0.578
H37Rv_KO_MbtN	-0.178	0.647
Trans05	1.45	0.315
macrophage_unactivated	0.363	0.48
IL1	0.504	0.059
Rapamycin	0.792	0.166
Tcell	0.267	0.209
GMCSF	0.124	-0.478
IFNab	1.046	0.221
IFNg	0.032	-0.802
IFNg_GMCSF1	-0.116	-1.059
Rv1432_day32	0.369	0.589
Rv1565c_day32	-0.03	0.253
secA2_input	0.158	-0.136
delta_Rv3594	0.233	0.561
delta_Rv3717	1.169	0.547
delta_Rv3811	0.404	0.223
delta_Rv0954	1.001	0.62
PonA1	0.671	-0.207
EccD1_KO	0.405	-0.77
EspI_KO	0.898	-0.682
PE35_KO	0.583	-0.394
PPE68_KO	0.47	-0.925
glycerol2	-0.036	-0.581
lignocerate	0.296	0.084
oleate	-1.136	-0.359
phosphatidylcholine	-0.31	-1.455
acetate	0.475	-0.19
glucAc	0.221	-0.285
Rv0950ko	0.292	-0.178
Rv1096ko	-0.021	-0.398
Rv3684ko	-0.655	-0.737
delta_otsA_trehalose	-0.103	-0.195