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 Rv3082c/virS:

update plot	correlation	link to info on gene
Rv2390c/-	(cc=0.5654)	info on Rv2390c/-
Rv1517/-	(cc=0.5047)	info on Rv1517/-
Rv2584c/apt	(cc=0.5001)	info on Rv2584c/apt
Rv1664/pks9	(cc=0.4911)	info on Rv1664/pks9
Rv2575/-	(cc=0.4731)	info on Rv2575/-
Rv2336/-	(cc=0.4556)	info on Rv2336/-
Rv3218/-	(cc=0.4467)	info on Rv3218/-
Rv1779c/-	(cc=0.4457)	info on Rv1779c/-
Rv3454/-	(cc=0.4433)	info on Rv3454/-
Rv3397c/phyA	(cc=0.442)	info on Rv3397c/phyA

Correlation of Rv3082c/virS with Rv2390c/-

Normalized LFCs for Rv3082c/virS:
(description and provenance of datasets)

	Rv3082c/virS	Rv2390c/-
Fe_supp_jason_reseq	1.124	0.204
low_pH_jason_reseq	0.979	-0.433
NO_jason_reseq	-0.202	0.27
B6_jason_reseq	0.081	-0.542
MHCII_jason_reseq	-0.56	-0.671
Isoniazid02	-0.224	-1.177
Rifampicin4	0.647	0.506
Ethambutol3	-0.942	-1.234
Meropenem3	-0.8	-1.096
Vancomycin16	-0.385	-0.891
Rv2680_day32	1.226	0.664
H37Rv_KO_MarP	0.048	0.093
hypoxia_3wks	0.383	-0.068
hypoxia_6wks	0.0	0.255
glycerol	0.146	-0.123
cholesterol	0.164	-0.102
AJ	0.292	-0.765
Bibs02	0.183	0.601
Bibs02c	0.209	-0.788
BL6	0.661	1.199
BL6a	0.61	0.419
BXD01	0.264	0.711
BXD010	0.038	0.714
BXD011	0.804	1.144
BXD03	1.358	0.824
BXD04	0.675	0.942
BXD05	0.557	0.753
BXD06	1.23	0.6
BXD07	1.429	0.825
BXD08	0.795	0.766
BXD09	0.863	0.867
CAST	-0.716	0.389
CCcont	0.762	0.531
DS01	0.236	-0.484
DS02	-0.764	-0.147
DS04	-0.181	-0.017
DS0c	0.358	-0.082
GP01	0.358	1.229
GP02	0.864	1.336
GP0c	0.883	0.79
NOD	0.033	-0.469
NZO	0.614	0.318
PWK	-0.649	0.337
H37Rv_KO_CtpC	0.916	0.306
H37Rv_KO_CtpD	1.479	1.358
H37Rv_KO_Rv1272	0.197	1.097
H37Rv_KO_SugABC	0.55	1.031
H37Rv_KO_MbtN	-0.603	0.291
Trans05	0.54	0.841
macrophage_unactivated	-0.136	0.073
IL1	0.78	0.825
Rapamycin	0.611	0.899
Tcell	0.137	-0.368
GMCSF	1.201	0.488
IFNab	0.372	-0.039
IFNg	1.109	0.759
IFNg_GMCSF1	0.446	0.804
Rv1432_day32	0.312	0.185
Rv1565c_day32	0.194	0.622
secA2_input	-0.344	-0.258
delta_Rv3594	-0.298	0.101
delta_Rv3717	0.0	0.058
delta_Rv3811	-0.199	-0.448
delta_Rv0954	-0.173	0.391
PonA1	0.042	0.641
EccD1_KO	0.099	-0.95
EspI_KO	0.411	-0.117
PE35_KO	-0.09	-1.114
PPE68_KO	-0.512	-0.873
glycerol2	0.273	0.258
lignocerate	0.336	1.139
oleate	0.067	0.383
phosphatidylcholine	0.496	1.062
acetate	0.105	0.178
glucAc	0.991	0.666
Rv0950ko	0.096	1.179
Rv1096ko	0.685	0.329
Rv3684ko	-0.57	0.187
delta_otsA_trehalose	2.056	0.697