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 Rv1408/rpe:

update plot	correlation	link to info on gene
Rv2333c/stp	(cc=0.5132)	info on Rv2333c/stp
Rv2114/-	(cc=0.4682)	info on Rv2114/-
Rv3433c/-	(cc=0.4629)	info on Rv3433c/-
Rv0026/-	(cc=0.4613)	info on Rv0026/-
Rv0860/fadB	(cc=0.4213)	info on Rv0860/fadB
Rv2732c/-	(cc=0.4206)	info on Rv2732c/-
Rv2470/glbO	(cc=0.4145)	info on Rv2470/glbO
Rv1173/fbiC	(cc=0.4052)	info on Rv1173/fbiC
Rv0859/fadA	(cc=0.4008)	info on Rv0859/fadA
Rv3238c/-	(cc=0.3928)	info on Rv3238c/-

Correlation of Rv1408/rpe with Rv2470/glbO

Normalized LFCs for Rv1408/rpe:
(description and provenance of datasets)

	Rv1408/rpe	Rv2470/glbO
Fe_supp_jason_reseq	0.458	0.0
low_pH_jason_reseq	-0.785	0.44
NO_jason_reseq	-1.231	0.0
B6_jason_reseq	-0.403	0.0
MHCII_jason_reseq	0.283	0.0
Isoniazid02	2.123	1.455
Rifampicin4	0.739	0.271
Ethambutol3	0.981	0.122
Meropenem3	0.497	0.528
Vancomycin16	-0.512	0.265
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	1.04	-0.586
hypoxia_3wks	-0.77	0.0
hypoxia_6wks	-1.416	0.0
glycerol	-0.146	0.709
cholesterol	-0.216	0.509
AJ	0.442	0.232
Bibs02	0.0	0.0
Bibs02c	0.838	0.887
BL6	-0.091	0.0
BL6a	0.489	0.696
BXD01	-0.304	0.0
BXD010	-0.415	0.0
BXD011	0.83	0.243
BXD03	0.334	0.258
BXD04	0.66	0.124
BXD05	0.332	0.135
BXD06	0.254	0.133
BXD07	0.182	0.0
BXD08	-0.31	0.133
BXD09	0.0	0.0
CAST	-0.167	0.23
CCcont	0.974	1.3
DS01	0.159	0.0
DS02	-0.325	0.0
DS04	1.405	0.0
DS0c	1.332	0.596
GP01	-0.32	0.0
GP02	-0.353	0.0
GP0c	-0.094	0.0
NOD	0.555	1.103
NZO	-0.646	0.548
PWK	0.374	0.539
H37Rv_KO_CtpC	-0.688	0.0
H37Rv_KO_CtpD	-0.41	0.127
H37Rv_KO_Rv1272	0.0	0.141
H37Rv_KO_SugABC	-0.321	0.099
H37Rv_KO_MbtN	0.0	0.0
Trans05	0.0	0.0
macrophage_unactivated	-0.537	0.0
IL1	1.05	0.0
Rapamycin	-0.252	0.0
Tcell	-1.183	0.0
GMCSF	-1.238	0.0
IFNab	1.07	0.0
IFNg	0.946	0.0
IFNg_GMCSF1	0.698	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.147	0.599
secA2_input	-0.952	-0.357
delta_Rv3594	0.402	0.402
delta_Rv3717	-0.522	0.0
delta_Rv3811	-0.348	0.0
delta_Rv0954	0.693	1.553
PonA1	-0.085	1.154
EccD1_KO	0.526	1.194
EspI_KO	1.417	2.219
PE35_KO	0.683	2.917
PPE68_KO	0.262	3.52
glycerol2	-0.88	-0.82
lignocerate	-0.106	-1.425
oleate	-0.713	-1.659
phosphatidylcholine	-0.542	-2.007
acetate	0.389	-0.09
glucAc	0.797	0.157
Rv0950ko	0.0	-0.715
Rv1096ko	-0.971	-2.177
Rv3684ko	-0.825	-0.609
delta_otsA_trehalose	-0.199	1.751