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 Rv1779c/-

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

	Rv3082c/virS	Rv1779c/-
Fe_supp_jason_reseq	1.124	-0.715
low_pH_jason_reseq	0.979	0.468
NO_jason_reseq	-0.202	0.021
B6_jason_reseq	0.081	-0.601
MHCII_jason_reseq	-0.56	-0.736
Isoniazid02	-0.224	-0.469
Rifampicin4	0.647	0.119
Ethambutol3	-0.942	-0.148
Meropenem3	-0.8	-0.399
Vancomycin16	-0.385	-1.165
Rv2680_day32	1.226	0.604
H37Rv_KO_MarP	0.048	0.164
hypoxia_3wks	0.383	0.0
hypoxia_6wks	0.0	-0.499
glycerol	0.146	-1.34
cholesterol	0.164	-0.107
AJ	0.292	0.819
Bibs02	0.183	0.926
Bibs02c	0.209	0.855
BL6	0.661	0.235
BL6a	0.61	0.661
BXD01	0.264	0.675
BXD010	0.038	-0.058
BXD011	0.804	0.099
BXD03	1.358	0.786
BXD04	0.675	1.114
BXD05	0.557	0.712
BXD06	1.23	0.562
BXD07	1.429	0.861
BXD08	0.795	1.067
BXD09	0.863	0.591
CAST	-0.716	-0.284
CCcont	0.762	0.449
DS01	0.236	-0.438
DS02	-0.764	-0.058
DS04	-0.181	0.462
DS0c	0.358	0.563
GP01	0.358	1.292
GP02	0.864	1.266
GP0c	0.883	1.354
NOD	0.033	0.583
NZO	0.614	0.897
PWK	-0.649	0.102
H37Rv_KO_CtpC	0.916	0.841
H37Rv_KO_CtpD	1.479	0.806
H37Rv_KO_Rv1272	0.197	1.009
H37Rv_KO_SugABC	0.55	0.668
H37Rv_KO_MbtN	-0.603	0.704
Trans05	0.54	0.41
macrophage_unactivated	-0.136	-0.622
IL1	0.78	0.219
Rapamycin	0.611	1.028
Tcell	0.137	0.215
GMCSF	1.201	-0.702
IFNab	0.372	0.366
IFNg	1.109	-0.115
IFNg_GMCSF1	0.446	0.129
Rv1432_day32	0.312	1.061
Rv1565c_day32	0.194	0.0
secA2_input	-0.344	0.111
delta_Rv3594	-0.298	-0.035
delta_Rv3717	0.0	0.269
delta_Rv3811	-0.199	0.165
delta_Rv0954	-0.173	-0.603
PonA1	0.042	-0.72
EccD1_KO	0.099	-1.457
EspI_KO	0.411	-0.559
PE35_KO	-0.09	-0.945
PPE68_KO	-0.512	-1.037
glycerol2	0.273	0.042
lignocerate	0.336	0.458
oleate	0.067	0.333
phosphatidylcholine	0.496	0.581
acetate	0.105	0.303
glucAc	0.991	0.499
Rv0950ko	0.096	0.112
Rv1096ko	0.685	-0.537
Rv3684ko	-0.57	0.295
delta_otsA_trehalose	2.056	1.24