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 Rv0743c/-:

update plot	correlation	link to info on gene
Rv1522c/mmpL12	(cc=0.6213)	info on Rv1522c/mmpL12
Rv0754/PE_PGRS11	(cc=0.47)	info on Rv0754/PE_PGRS11
Rv2312/-	(cc=0.4642)	info on Rv2312/-
Rv3323c/moaX	(cc=0.4566)	info on Rv3323c/moaX
Rv2408/PE24	(cc=0.4519)	info on Rv2408/PE24
Rv1450c/PE_PGRS27	(cc=0.4399)	info on Rv1450c/PE_PGRS27
Rv3437/-	(cc=0.4345)	info on Rv3437/-
Rv0413/mutT3	(cc=0.4327)	info on Rv0413/mutT3
Rv2143/-	(cc=0.4309)	info on Rv2143/-
Rv3312c/-	(cc=0.429)	info on Rv3312c/-

Correlation of Rv0743c/- with Rv1522c/mmpL12

Normalized LFCs for Rv0743c/-:
(description and provenance of datasets)

	Rv0743c/-	Rv1522c/mmpL12
Fe_supp_jason_reseq	-0.605	0.155
low_pH_jason_reseq	-0.734	-0.094
NO_jason_reseq	-0.102	0.142
B6_jason_reseq	-0.357	-0.722
MHCII_jason_reseq	-0.135	-0.391
Isoniazid02	-2.117	-0.998
Rifampicin4	-0.512	-0.617
Ethambutol3	-0.535	-0.761
Meropenem3	0.467	-0.375
Vancomycin16	-1.409	-0.621
Rv2680_day32	-0.269	0.562
H37Rv_KO_MarP	0.182	0.102
hypoxia_3wks	0.12	0.112
hypoxia_6wks	0.123	0.115
glycerol	0.521	-0.527
cholesterol	-0.153	-0.503
AJ	0.363	-0.245
Bibs02	0.736	0.152
Bibs02c	0.144	0.045
BL6	-0.468	0.062
BL6a	0.161	0.402
BXD01	-0.184	0.241
BXD010	-0.298	0.157
BXD011	-0.076	0.139
BXD03	-0.195	0.029
BXD04	-0.355	0.103
BXD05	0.261	0.409
BXD06	-0.076	0.434
BXD07	-0.106	0.495
BXD08	-0.014	0.137
BXD09	-0.083	0.078
CAST	0.302	0.0
CCcont	-0.382	0.221
DS01	0.11	0.051
DS02	0.09	-0.08
DS04	0.756	0.162
DS0c	-0.069	-0.162
GP01	1.725	0.594
GP02	-0.447	0.705
GP0c	0.347	-0.138
NOD	1.53	0.648
NZO	0.406	-0.133
PWK	0.49	-0.178
H37Rv_KO_CtpC	0.663	0.405
H37Rv_KO_CtpD	1.198	0.945
H37Rv_KO_Rv1272	0.271	1.056
H37Rv_KO_SugABC	-0.875	0.413
H37Rv_KO_MbtN	0.491	0.515
Trans05	0.608	0.717
macrophage_unactivated	0.527	0.051
IL1	0.077	-0.098
Rapamycin	0.068	0.049
Tcell	-0.362	-0.218
GMCSF	0.702	0.209
IFNab	0.112	-0.305
IFNg	-0.04	-0.021
IFNg_GMCSF1	0.047	-0.182
Rv1432_day32	4.237	3.323
Rv1565c_day32	0.434	0.439
secA2_input	0.07	0.204
delta_Rv3594	-0.028	0.171
delta_Rv3717	0.303	-0.024
delta_Rv3811	-0.065	0.406
delta_Rv0954	0.041	-0.116
PonA1	0.095	-0.128
EccD1_KO	0.431	0.589
EspI_KO	1.075	-0.165
PE35_KO	-0.064	0.4
PPE68_KO	0.058	0.438
glycerol2	0.852	-0.13
lignocerate	0.632	0.054
oleate	1.034	-0.286
phosphatidylcholine	0.908	0.049
acetate	0.138	-0.123
glucAc	0.108	0.232
Rv0950ko	0.344	0.0
Rv1096ko	-0.018	-0.893
Rv3684ko	-0.059	-0.54
delta_otsA_trehalose	1.259	-0.397