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 Rv2579/dhaA

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

	Rv1847/-	Rv2579/dhaA
Fe_supp_jason_reseq	0.385	-0.407
low_pH_jason_reseq	-0.621	-0.845
NO_jason_reseq	0.575	0.034
B6_jason_reseq	0.324	0.28
MHCII_jason_reseq	-0.272	0.117
Isoniazid02	-0.575	0.655
Rifampicin4	-0.038	0.498
Ethambutol3	0.617	0.878
Meropenem3	-0.918	0.079
Vancomycin16	-0.363	0.196
Rv2680_day32	0.461	0.432
H37Rv_KO_MarP	0.61	0.085
hypoxia_3wks	-0.223	0.06
hypoxia_6wks	0.035	-0.077
glycerol	0.154	-0.787
cholesterol	0.578	-0.824
AJ	0.499	0.657
Bibs02	-0.495	-0.411
Bibs02c	0.306	-0.138
BL6	-0.095	0.853
BL6a	0.06	-0.174
BXD01	0.223	0.0
BXD010	-0.04	-0.019
BXD011	-0.029	-0.104
BXD03	0.513	0.152
BXD04	0.263	-0.286
BXD05	0.184	-0.515
BXD06	0.256	-0.074
BXD07	0.628	-0.135
BXD08	0.782	0.251
BXD09	0.203	-0.224
CAST	0.464	0.185
CCcont	-0.357	0.257
DS01	0.058	0.503
DS02	-0.589	-0.31
DS04	0.538	0.909
DS0c	0.253	0.214
GP01	0.187	0.084
GP02	1.485	1.387
GP0c	-0.213	-0.284
NOD	-0.376	0.301
NZO	-0.269	0.551
PWK	0.573	0.925
H37Rv_KO_CtpC	-0.182	-0.056
H37Rv_KO_CtpD	-0.066	-0.025
H37Rv_KO_Rv1272	1.354	0.441
H37Rv_KO_SugABC	1.056	0.436
H37Rv_KO_MbtN	1.013	0.208
Trans05	0.859	-0.073
macrophage_unactivated	0.275	0.685
IL1	0.258	0.534
Rapamycin	0.242	1.062
Tcell	0.502	0.587
GMCSF	0.349	0.425
IFNab	0.704	0.311
IFNg	0.604	0.834
IFNg_GMCSF1	0.474	1.087
Rv1432_day32	0.249	0.36
Rv1565c_day32	0.355	0.169
secA2_input	-0.199	-0.258
delta_Rv3594	-0.229	-0.038
delta_Rv3717	-0.103	0.128
delta_Rv3811	-0.25	-0.086
delta_Rv0954	-0.353	0.245
PonA1	-0.63	-1.099
EccD1_KO	-0.253	0.309
EspI_KO	-0.431	0.222
PE35_KO	0.009	0.732
PPE68_KO	0.355	0.458
glycerol2	0.504	0.622
lignocerate	0.785	0.595
oleate	0.649	0.515
phosphatidylcholine	0.651	0.765
acetate	0.037	0.294
glucAc	0.059	0.055
Rv0950ko	0.302	0.021
Rv1096ko	0.808	0.241
Rv3684ko	0.275	-0.046
delta_otsA_trehalose	-1.233	-0.585