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 Rv1847/-:

update plot	correlation	link to info on gene
Rv0844c/narL	(cc=0.4714)	info on Rv0844c/narL
Rv3840/-	(cc=0.4701)	info on Rv3840/-
Rv0072/-	(cc=0.4655)	info on Rv0072/-
Rv0872c/PE_PGRS15	(cc=0.4498)	info on Rv0872c/PE_PGRS15
Rv1892/-	(cc=0.4494)	info on Rv1892/-
Rv1373/-	(cc=0.4476)	info on Rv1373/-
Rv1831/-	(cc=0.4418)	info on Rv1831/-
Rv3487c/lipF	(cc=0.432)	info on Rv3487c/lipF
Rv2579/dhaA	(cc=0.4307)	info on Rv2579/dhaA
Rv1355c/moeY	(cc=0.4214)	info on Rv1355c/moeY

Correlation of Rv1847/- with Rv1373/-

Normalized LFCs for Rv1847/-:
(description and provenance of datasets)

	Rv1847/-	Rv1373/-
Fe_supp_jason_reseq	0.385	-0.068
low_pH_jason_reseq	-0.621	-0.259
NO_jason_reseq	0.575	-0.037
B6_jason_reseq	0.324	0.623
MHCII_jason_reseq	-0.272	0.244
Isoniazid02	-0.575	-0.882
Rifampicin4	-0.038	-0.409
Ethambutol3	0.617	-1.194
Meropenem3	-0.918	-0.418
Vancomycin16	-0.363	-0.61
Rv2680_day32	0.461	0.114
H37Rv_KO_MarP	0.61	0.257
hypoxia_3wks	-0.223	-0.02
hypoxia_6wks	0.035	0.167
glycerol	0.154	-0.335
cholesterol	0.578	-0.043
AJ	0.499	0.439
Bibs02	-0.495	-0.183
Bibs02c	0.306	-0.306
BL6	-0.095	0.607
BL6a	0.06	0.065
BXD01	0.223	0.35
BXD010	-0.04	0.702
BXD011	-0.029	0.907
BXD03	0.513	0.698
BXD04	0.263	0.755
BXD05	0.184	0.241
BXD06	0.256	0.513
BXD07	0.628	0.067
BXD08	0.782	0.514
BXD09	0.203	0.532
CAST	0.464	0.529
CCcont	-0.357	0.136
DS01	0.058	0.058
DS02	-0.589	-0.392
DS04	0.538	0.2
DS0c	0.253	0.105
GP01	0.187	0.44
GP02	1.485	1.553
GP0c	-0.213	0.518
NOD	-0.376	1.183
NZO	-0.269	0.364
PWK	0.573	0.111
H37Rv_KO_CtpC	-0.182	0.215
H37Rv_KO_CtpD	-0.066	0.648
H37Rv_KO_Rv1272	1.354	0.48
H37Rv_KO_SugABC	1.056	0.915
H37Rv_KO_MbtN	1.013	0.345
Trans05	0.859	1.058
macrophage_unactivated	0.275	0.262
IL1	0.258	0.578
Rapamycin	0.242	0.847
Tcell	0.502	0.401
GMCSF	0.349	0.525
IFNab	0.704	0.0
IFNg	0.604	0.543
IFNg_GMCSF1	0.474	0.233
Rv1432_day32	0.249	-0.378
Rv1565c_day32	0.355	-0.201
secA2_input	-0.199	-0.29
delta_Rv3594	-0.229	0.675
delta_Rv3717	-0.103	0.028
delta_Rv3811	-0.25	0.097
delta_Rv0954	-0.353	0.075
PonA1	-0.63	0.067
EccD1_KO	-0.253	-0.105
EspI_KO	-0.431	0.177
PE35_KO	0.009	0.073
PPE68_KO	0.355	0.198
glycerol2	0.504	0.567
lignocerate	0.785	0.588
oleate	0.649	0.656
phosphatidylcholine	0.651	0.774
acetate	0.037	0.108
glucAc	0.059	0.023
Rv0950ko	0.302	0.802
Rv1096ko	0.808	0.214
Rv3684ko	0.275	0.419
delta_otsA_trehalose	-1.233	-0.693