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 Rv3186/-:

update plot	correlation	link to info on gene
Rv1763/-	(cc=0.7771)	info on Rv1763/-
Rv2648/-	(cc=0.7766)	info on Rv2648/-
Rv2815c/-	(cc=0.7625)	info on Rv2815c/-
Rv3474/-	(cc=0.7489)	info on Rv3474/-
Rv1757c/-	(cc=0.7377)	info on Rv1757c/-
Rv2105/-	(cc=0.7296)	info on Rv2105/-
Rv2168c/-	(cc=0.7157)	info on Rv2168c/-
Rv1370c/-	(cc=0.7152)	info on Rv1370c/-
Rv2278/-	(cc=0.7152)	info on Rv2278/-
Rv3381c/-	(cc=0.6994)	info on Rv3381c/-

Correlation of Rv3186/- with Rv2168c/-

Normalized LFCs for Rv3186/-:
(description and provenance of datasets)

	Rv3186/-	Rv2168c/-
Fe_supp_jason_reseq	-0.172	-0.051
low_pH_jason_reseq	0.915	1.444
NO_jason_reseq	-0.037	-0.013
B6_jason_reseq	-0.497	-1.036
MHCII_jason_reseq	0.0	-0.973
Isoniazid02	-0.083	0.282
Rifampicin4	0.29	0.923
Ethambutol3	1.115	1.436
Meropenem3	-0.198	-0.268
Vancomycin16	-0.058	0.252
Rv2680_day32	-0.285	-0.216
H37Rv_KO_MarP	-0.291	-0.209
hypoxia_3wks	0.797	0.514
hypoxia_6wks	0.24	0.01
glycerol	-0.489	-0.671
cholesterol	0.069	-0.082
AJ	1.371	1.565
Bibs02	0.228	-0.276
Bibs02c	0.917	1.079
BL6	0.381	0.264
BL6a	0.937	0.845
BXD01	0.297	0.676
BXD010	0.637	0.585
BXD011	0.397	0.813
BXD03	0.648	0.882
BXD04	0.452	0.485
BXD05	0.924	1.495
BXD06	0.491	0.678
BXD07	0.638	0.946
BXD08	0.171	0.417
BXD09	0.386	0.662
CAST	0.452	0.936
CCcont	-0.13	0.006
DS01	0.157	0.571
DS02	0.345	0.742
DS04	-0.118	0.475
DS0c	0.134	0.693
GP01	1.048	1.292
GP02	1.249	1.348
GP0c	0.675	0.714
NOD	0.021	0.696
NZO	1.162	1.318
PWK	1.081	1.462
H37Rv_KO_CtpC	0.108	0.655
H37Rv_KO_CtpD	-0.438	-0.017
H37Rv_KO_Rv1272	0.126	0.345
H37Rv_KO_SugABC	-0.24	0.009
H37Rv_KO_MbtN	0.841	0.98
Trans05	0.416	0.831
macrophage_unactivated	0.051	-0.032
IL1	-0.593	-0.015
Rapamycin	-1.728	-0.064
Tcell	-1.577	-0.362
GMCSF	-1.061	0.092
IFNab	-1.261	0.06
IFNg	-0.516	-0.283
IFNg_GMCSF1	-0.933	0.079
Rv1432_day32	3.988	1.412
Rv1565c_day32	0.032	-1.019
secA2_input	0.124	-0.058
delta_Rv3594	-0.135	0.219
delta_Rv3717	-0.54	-0.313
delta_Rv3811	-0.568	-0.706
delta_Rv0954	0.027	0.066
PonA1	-0.076	-0.487
EccD1_KO	-0.72	-0.391
EspI_KO	0.319	0.576
PE35_KO	0.61	0.411
PPE68_KO	-0.141	-0.339
glycerol2	-0.367	-0.72
lignocerate	-0.319	-0.326
oleate	-0.464	-0.998
phosphatidylcholine	-0.139	-0.447
acetate	0.708	0.554
glucAc	1.398	1.332
Rv0950ko	0.09	-0.13
Rv1096ko	0.223	0.434
Rv3684ko	-0.102	0.491
delta_otsA_trehalose	0.66	0.332