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 Rv3658c/-:

update plot	correlation	link to info on gene
Rv0619/galTb	(cc=0.4425)	info on Rv0619/galTb
Rv3565/aspB	(cc=0.4249)	info on Rv3565/aspB
Rv3438/-	(cc=0.4106)	info on Rv3438/-
Rv3043c/ctaD	(cc=0.4068)	info on Rv3043c/ctaD
Rv3489/-	(cc=0.4013)	info on Rv3489/-
Rv0665/vapC8	(cc=0.3982)	info on Rv0665/vapC8
Rv1365c/rsfA	(cc=0.3935)	info on Rv1365c/rsfA
Rv2849c/cobO	(cc=0.3885)	info on Rv2849c/cobO
Rv3705c/-	(cc=0.3867)	info on Rv3705c/-
Rv3793/embC	(cc=0.3857)	info on Rv3793/embC

Correlation of Rv3658c/- with Rv3438/-

Normalized LFCs for Rv3658c/-:
(description and provenance of datasets)

	Rv3658c/-	Rv3438/-
Fe_supp_jason_reseq	1.08	1.678
low_pH_jason_reseq	0.341	1.215
NO_jason_reseq	-0.116	-2.084
B6_jason_reseq	0.347	1.845
MHCII_jason_reseq	0.934	0.053
Isoniazid02	-0.215	-0.914
Rifampicin4	1.148	-0.236
Ethambutol3	0.084	-0.471
Meropenem3	0.476	-1.148
Vancomycin16	0.682	0.324
Rv2680_day32	0.244	0.593
H37Rv_KO_MarP	0.549	-0.409
hypoxia_3wks	0.291	-0.104
hypoxia_6wks	-1.222	-2.036
glycerol	0.26	0.073
cholesterol	-0.156	1.403
AJ	-1.489	-0.222
Bibs02	0.494	0.066
Bibs02c	-0.815	0.925
BL6	0.659	1.308
BL6a	0.663	1.706
BXD01	0.0	0.622
BXD010	0.276	2.112
BXD011	0.394	1.087
BXD03	1.174	1.843
BXD04	-0.022	1.397
BXD05	0.578	1.159
BXD06	0.797	0.917
BXD07	0.84	1.269
BXD08	0.462	0.696
BXD09	1.077	1.069
CAST	0.297	1.87
CCcont	1.262	1.041
DS01	-0.041	-0.476
DS02	0.699	-0.298
DS04	0.649	0.358
DS0c	0.247	0.154
GP01	0.468	-1.608
GP02	-0.848	-1.105
GP0c	0.044	-0.918
NOD	-1.238	0.737
NZO	-0.069	-0.637
PWK	-0.669	0.45
H37Rv_KO_CtpC	-0.175	-0.061
H37Rv_KO_CtpD	0.105	1.161
H37Rv_KO_Rv1272	-0.1	0.657
H37Rv_KO_SugABC	-1.6	0.496
H37Rv_KO_MbtN	-0.538	0.352
Trans05	-0.646	0.822
macrophage_unactivated	-0.915	-0.259
IL1	0.851	0.733
Rapamycin	0.445	-0.252
Tcell	-0.143	0.0
GMCSF	1.582	1.827
IFNab	0.84	0.233
IFNg	0.227	0.935
IFNg_GMCSF1	0.927	1.1
Rv1432_day32	0.0	-1.182
Rv1565c_day32	0.404	0.482
secA2_input	0.704	0.598
delta_Rv3594	-0.321	-0.711
delta_Rv3717	0.091	-0.104
delta_Rv3811	0.174	-0.476
delta_Rv0954	0.659	0.129
PonA1	1.289	0.521
EccD1_KO	-0.602	-1.22
EspI_KO	0.465	-0.029
PE35_KO	-1.068	0.403
PPE68_KO	-0.995	-0.698
glycerol2	-1.033	-0.722
lignocerate	-0.448	-0.544
oleate	-1.131	-1.874
phosphatidylcholine	-0.721	-0.923
acetate	-0.637	-0.437
glucAc	-0.257	0.501
Rv0950ko	-0.669	0.479
Rv1096ko	-0.567	0.35
Rv3684ko	0.878	-0.187
delta_otsA_trehalose	-0.336	0.85