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 Rv1831/-

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

	Rv1847/-	Rv1831/-
Fe_supp_jason_reseq	0.385	-0.275
low_pH_jason_reseq	-0.621	-0.952
NO_jason_reseq	0.575	-0.68
B6_jason_reseq	0.324	-1.36
MHCII_jason_reseq	-0.272	-0.162
Isoniazid02	-0.575	0.665
Rifampicin4	-0.038	-0.531
Ethambutol3	0.617	1.136
Meropenem3	-0.918	0.271
Vancomycin16	-0.363	-0.355
Rv2680_day32	0.461	0.69
H37Rv_KO_MarP	0.61	-0.512
hypoxia_3wks	-0.223	0.124
hypoxia_6wks	0.035	1.021
glycerol	0.154	-0.11
cholesterol	0.578	0.052
AJ	0.499	-0.613
Bibs02	-0.495	-1.674
Bibs02c	0.306	0.349
BL6	-0.095	0.796
BL6a	0.06	1.37
BXD01	0.223	2.036
BXD010	-0.04	0.407
BXD011	-0.029	1.379
BXD03	0.513	1.217
BXD04	0.263	1.986
BXD05	0.184	1.501
BXD06	0.256	1.635
BXD07	0.628	1.565
BXD08	0.782	2.417
BXD09	0.203	1.261
CAST	0.464	-0.087
CCcont	-0.357	1.331
DS01	0.058	-0.349
DS02	-0.589	-0.487
DS04	0.538	1.148
DS0c	0.253	0.476
GP01	0.187	-0.413
GP02	1.485	1.186
GP0c	-0.213	-0.086
NOD	-0.376	1.302
NZO	-0.269	-1.05
PWK	0.573	0.198
H37Rv_KO_CtpC	-0.182	0.72
H37Rv_KO_CtpD	-0.066	-0.09
H37Rv_KO_Rv1272	1.354	1.759
H37Rv_KO_SugABC	1.056	1.836
H37Rv_KO_MbtN	1.013	1.611
Trans05	0.859	1.252
macrophage_unactivated	0.275	0.568
IL1	0.258	-0.083
Rapamycin	0.242	-0.439
Tcell	0.502	0.091
GMCSF	0.349	0.314
IFNab	0.704	0.689
IFNg	0.604	0.265
IFNg_GMCSF1	0.474	0.547
Rv1432_day32	0.249	1.313
Rv1565c_day32	0.355	-0.471
secA2_input	-0.199	-0.25
delta_Rv3594	-0.229	-0.494
delta_Rv3717	-0.103	0.323
delta_Rv3811	-0.25	-0.004
delta_Rv0954	-0.353	-0.375
PonA1	-0.63	-1.199
EccD1_KO	-0.253	0.96
EspI_KO	-0.431	0.414
PE35_KO	0.009	-0.029
PPE68_KO	0.355	0.106
glycerol2	0.504	-0.263
lignocerate	0.785	0.145
oleate	0.649	0.424
phosphatidylcholine	0.651	0.326
acetate	0.037	-0.8
glucAc	0.059	-0.318
Rv0950ko	0.302	-0.012
Rv1096ko	0.808	-0.546
Rv3684ko	0.275	-0.193
delta_otsA_trehalose	-1.233	-2.555