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 Rv1398c/vapB10:

update plot	correlation	link to info on gene
Rv1430/PE16	(cc=0.4664)	info on Rv1430/PE16
Rv2792c/-	(cc=0.4533)	info on Rv2792c/-
Rv1962A/vapB35	(cc=0.4515)	info on Rv1962A/vapB35
Rv1505c/-	(cc=0.4461)	info on Rv1505c/-
Rv3166c/-	(cc=0.4167)	info on Rv3166c/-
Rv1954c/-	(cc=0.405)	info on Rv1954c/-
Rv2248/-	(cc=0.4039)	info on Rv2248/-
Rv3698/-	(cc=0.4008)	info on Rv3698/-
Rv2545/vapB18	(cc=0.4001)	info on Rv2545/vapB18
Rv2818c/-	(cc=0.3992)	info on Rv2818c/-

Correlation of Rv1398c/vapB10 with Rv1430/PE16

Normalized LFCs for Rv1398c/vapB10:
(description and provenance of datasets)

	Rv1398c/vapB10	Rv1430/PE16
Fe_supp_jason_reseq	-0.834	0.302
low_pH_jason_reseq	-0.773	-0.125
NO_jason_reseq	-0.189	0.113
B6_jason_reseq	-1.519	-0.171
MHCII_jason_reseq	0.368	0.083
Isoniazid02	0.976	-0.851
Rifampicin4	-1.018	-1.099
Ethambutol3	1.727	-0.067
Meropenem3	-0.223	-0.836
Vancomycin16	-0.305	-0.74
Rv2680_day32	-0.968	-0.018
H37Rv_KO_MarP	-0.59	-0.229
hypoxia_3wks	0.622	0.69
hypoxia_6wks	-1.006	0.226
glycerol	1.81	0.161
cholesterol	0.282	0.209
AJ	-0.373	0.45
Bibs02	0.083	-0.183
Bibs02c	0.638	-0.838
BL6	1.081	1.033
BL6a	0.763	0.306
BXD01	0.968	0.813
BXD010	0.777	0.928
BXD011	-0.125	0.727
BXD03	0.847	1.269
BXD04	0.663	1.496
BXD05	-0.159	1.203
BXD06	0.061	0.868
BXD07	0.93	1.106
BXD08	1.599	1.299
BXD09	0.359	0.941
CAST	0.085	0.47
CCcont	0.833	0.585
DS01	1.266	0.216
DS02	-0.654	-0.52
DS04	1.114	-0.046
DS0c	1.315	-0.363
GP01	-1.062	-1.111
GP02	0.618	0.305
GP0c	0.768	-0.218
NOD	2.298	0.727
NZO	-0.808	-0.225
PWK	-0.449	0.179
H37Rv_KO_CtpC	1.43	0.47
H37Rv_KO_CtpD	1.668	1.086
H37Rv_KO_Rv1272	1.593	0.988
H37Rv_KO_SugABC	-1.297	-0.565
H37Rv_KO_MbtN	-1.419	0.0
Trans05	0.529	1.093
macrophage_unactivated	0.799	0.764
IL1	0.575	0.667
Rapamycin	0.534	0.509
Tcell	2.281	0.512
GMCSF	-0.124	0.415
IFNab	0.556	0.366
IFNg	0.676	0.128
IFNg_GMCSF1	0.179	0.352
Rv1432_day32	0.911	0.216
Rv1565c_day32	0.199	0.398
secA2_input	-1.766	-1.49
delta_Rv3594	0.734	0.324
delta_Rv3717	-0.274	-0.503
delta_Rv3811	0.819	-0.265
delta_Rv0954	0.017	0.512
PonA1	-0.375	0.182
EccD1_KO	-0.747	0.635
EspI_KO	-0.191	1.035
PE35_KO	1.219	0.356
PPE68_KO	1.245	0.435
glycerol2	0.287	0.163
lignocerate	0.18	-0.105
oleate	0.79	0.79
phosphatidylcholine	0.753	0.38
acetate	-0.166	-0.16
glucAc	-0.53	-0.879
Rv0950ko	0.084	0.407
Rv1096ko	0.166	0.446
Rv3684ko	-1.389	0.092
delta_otsA_trehalose	0.099	-0.383