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 Rv0423c/thiC:

update plot	correlation	link to info on gene
Rv1563c/treY	(cc=0.454)	info on Rv1563c/treY
Rv3040c/-	(cc=0.4502)	info on Rv3040c/-
Rv2470/glbO	(cc=0.4458)	info on Rv2470/glbO
Rv2847c/cysG	(cc=0.4304)	info on Rv2847c/cysG
Rv1153c/omt	(cc=0.4247)	info on Rv1153c/omt
Rv2518c/ldtB	(cc=0.4237)	info on Rv2518c/ldtB
Rv2270/lppN	(cc=0.4219)	info on Rv2270/lppN
Rv2169c/-	(cc=0.4175)	info on Rv2169c/-
Rv1242/vapC33	(cc=0.4143)	info on Rv1242/vapC33
Rv1068c/PE_PGRS20	(cc=0.4099)	info on Rv1068c/PE_PGRS20

Correlation of Rv0423c/thiC with Rv2518c/ldtB

Normalized LFCs for Rv0423c/thiC:
(description and provenance of datasets)

	Rv0423c/thiC	Rv2518c/ldtB
Fe_supp_jason_reseq	0.0	0.0
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.153	0.0
MHCII_jason_reseq	0.257	0.0
Isoniazid02	-0.183	0.0
Rifampicin4	-0.712	0.0
Ethambutol3	-0.32	0.168
Meropenem3	-0.151	0.0
Vancomycin16	-0.334	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.178	1.242
hypoxia_3wks	0.0	-0.502
hypoxia_6wks	-0.288	-0.549
glycerol	0.791	0.992
cholesterol	-0.145	0.398
AJ	0.212	0.0
Bibs02	-0.183	0.0
Bibs02c	0.677	0.0
BL6	-0.125	0.0
BL6a	0.499	0.0
BXD01	0.328	0.0
BXD010	-0.128	0.0
BXD011	0.321	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	-0.135	0.0
BXD06	0.432	0.0
BXD07	0.349	0.0
BXD08	0.0	0.133
BXD09	-0.14	0.0
CAST	-0.23	0.0
CCcont	0.0	0.633
DS01	0.0	0.0
DS02	0.199	0.0
DS04	-0.194	0.0
DS0c	0.198	0.0
GP01	-0.099	0.0
GP02	-0.083	0.083
GP0c	-0.13	0.0
NOD	-0.225	0.0
NZO	0.182	0.0
PWK	0.342	0.0
H37Rv_KO_CtpC	-0.162	0.162
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	-0.141	0.0
H37Rv_KO_SugABC	-0.099	0.0
H37Rv_KO_MbtN	0.094	0.0
Trans05	-0.131	0.0
macrophage_unactivated	0.0	0.0
IL1	0.715	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.333	0.0
IFNab	0.0	0.0
IFNg	-0.369	0.0
IFNg_GMCSF1	1.7	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.0	0.202
delta_Rv3594	0.193	0.0
delta_Rv3717	-0.174	-0.331
delta_Rv3811	0.358	-0.187
delta_Rv0954	-0.178	-0.34
PonA1	0.0	-0.145
EccD1_KO	1.145	-0.73
EspI_KO	0.359	0.285
PE35_KO	0.703	2.765
PPE68_KO	1.43	2.678
glycerol2	-0.161	-1.328
lignocerate	-0.14	-0.712
oleate	-0.537	-2.032
phosphatidylcholine	-0.338	-0.934
acetate	-0.401	-0.843
glucAc	0.213	-1.481
Rv0950ko	0.0	-2.044
Rv1096ko	0.323	-1.632
Rv3684ko	0.0	-0.305
delta_otsA_trehalose	2.107	1.294