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 Rv3878/espJ:

update plot	correlation	link to info on gene
Rv2951c/-	(cc=0.4643)	info on Rv2951c/-
Rv0847/lpqS	(cc=0.4519)	info on Rv0847/lpqS
Rv0464c/-	(cc=0.4242)	info on Rv0464c/-
Rv0248c/-	(cc=0.4233)	info on Rv0248c/-
Rv3640c/-	(cc=0.4197)	info on Rv3640c/-
Rv2943A/-	(cc=0.4194)	info on Rv2943A/-
Rv0681/-	(cc=0.4041)	info on Rv0681/-
Rv2605c/tesB2	(cc=0.4005)	info on Rv2605c/tesB2
Rv0892/-	(cc=0.3958)	info on Rv0892/-
Rv3881c/espB	(cc=0.3949)	info on Rv3881c/espB

Correlation of Rv3878/espJ with Rv2951c/-

Normalized LFCs for Rv3878/espJ:
(description and provenance of datasets)

	Rv3878/espJ	Rv2951c/-
Fe_supp_jason_reseq	1.121	0.605
low_pH_jason_reseq	0.766	0.708
NO_jason_reseq	-0.512	-0.436
B6_jason_reseq	-0.171	0.165
MHCII_jason_reseq	0.007	0.359
Isoniazid02	-0.509	-0.677
Rifampicin4	-0.282	-0.068
Ethambutol3	-0.041	-0.524
Meropenem3	2.262	0.374
Vancomycin16	-0.016	-0.183
Rv2680_day32	-2.217	-0.88
H37Rv_KO_MarP	0.876	-0.063
hypoxia_3wks	-0.04	0.889
hypoxia_6wks	0.553	0.466
glycerol	-0.705	-0.698
cholesterol	-1.172	-0.35
AJ	-0.622	-0.652
Bibs02	-0.242	-0.172
Bibs02c	0.582	-0.776
BL6	0.302	0.318
BL6a	0.893	-0.174
BXD01	0.133	0.343
BXD010	0.481	0.212
BXD011	0.217	0.007
BXD03	0.051	0.293
BXD04	-0.339	0.484
BXD05	-0.816	0.564
BXD06	-0.132	0.249
BXD07	-0.387	-0.025
BXD08	0.083	-0.322
BXD09	-0.049	0.212
CAST	-0.722	-0.389
CCcont	-0.643	0.062
DS01	0.936	0.164
DS02	0.531	-0.323
DS04	1.114	-0.441
DS0c	0.369	0.09
GP01	-0.694	-1.134
GP02	-0.966	-0.72
GP0c	0.107	-0.325
NOD	-0.029	0.54
NZO	-0.491	-1.196
PWK	0.479	-0.21
H37Rv_KO_CtpC	0.075	0.193
H37Rv_KO_CtpD	0.613	0.067
H37Rv_KO_Rv1272	0.433	0.847
H37Rv_KO_SugABC	0.659	0.511
H37Rv_KO_MbtN	-0.147	0.055
Trans05	1.057	0.176
macrophage_unactivated	0.331	0.704
IL1	-0.214	-0.16
Rapamycin	-0.654	-0.543
Tcell	0.766	0.31
GMCSF	-0.084	-0.29
IFNab	0.611	0.372
IFNg	-0.283	-0.404
IFNg_GMCSF1	-0.578	-0.195
Rv1432_day32	-0.177	-0.624
Rv1565c_day32	-0.501	0.009
secA2_input	-0.146	-0.277
delta_Rv3594	0.3	0.685
delta_Rv3717	-0.507	0.052
delta_Rv3811	0.468	0.467
delta_Rv0954	0.938	0.997
PonA1	0.335	0.464
EccD1_KO	1.615	0.122
EspI_KO	0.1	0.257
PE35_KO	0.128	0.922
PPE68_KO	0.099	0.64
glycerol2	0.097	0.565
lignocerate	0.33	0.218
oleate	0.208	0.398
phosphatidylcholine	0.387	0.287
acetate	-0.121	-0.143
glucAc	-0.362	0.141
Rv0950ko	1.203	0.0
Rv1096ko	0.769	-0.09
Rv3684ko	-0.072	-0.196
delta_otsA_trehalose	0.981	0.756