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 Rv1370c/-

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

	Rv3186/-	Rv1370c/-
Fe_supp_jason_reseq	-0.172	-0.051
low_pH_jason_reseq	0.915	0.636
NO_jason_reseq	-0.037	-0.1
B6_jason_reseq	-0.497	-0.233
MHCII_jason_reseq	0.0	-0.533
Isoniazid02	-0.083	0.029
Rifampicin4	0.29	0.544
Ethambutol3	1.115	1.021
Meropenem3	-0.198	-0.074
Vancomycin16	-0.058	0.0
Rv2680_day32	-0.285	-0.111
H37Rv_KO_MarP	-0.291	-0.061
hypoxia_3wks	0.797	0.961
hypoxia_6wks	0.24	-0.24
glycerol	-0.489	-0.78
cholesterol	0.069	-0.044
AJ	1.371	1.22
Bibs02	0.228	-0.405
Bibs02c	0.917	0.868
BL6	0.381	-0.691
BL6a	0.937	0.09
BXD01	0.297	0.086
BXD010	0.637	0.201
BXD011	0.397	0.099
BXD03	0.648	0.336
BXD04	0.452	0.116
BXD05	0.924	0.52
BXD06	0.491	0.022
BXD07	0.638	0.223
BXD08	0.171	-0.006
BXD09	0.386	0.075
CAST	0.452	0.699
CCcont	-0.13	-0.902
DS01	0.157	0.371
DS02	0.345	0.302
DS04	-0.118	0.333
DS0c	0.134	0.325
GP01	1.048	0.964
GP02	1.249	1.089
GP0c	0.675	0.279
NOD	0.021	0.156
NZO	1.162	0.816
PWK	1.081	1.434
H37Rv_KO_CtpC	0.108	0.354
H37Rv_KO_CtpD	-0.438	0.063
H37Rv_KO_Rv1272	0.126	0.115
H37Rv_KO_SugABC	-0.24	0.156
H37Rv_KO_MbtN	0.841	0.918
Trans05	0.416	0.355
macrophage_unactivated	0.051	-0.524
IL1	-0.593	-1.453
Rapamycin	-1.728	-0.537
Tcell	-1.577	-0.899
GMCSF	-1.061	0.021
IFNab	-1.261	-0.834
IFNg	-0.516	-0.66
IFNg_GMCSF1	-0.933	0.217
Rv1432_day32	3.988	1.219
Rv1565c_day32	0.032	-0.618
secA2_input	0.124	0.632
delta_Rv3594	-0.135	-0.06
delta_Rv3717	-0.54	-0.342
delta_Rv3811	-0.568	-0.546
delta_Rv0954	0.027	0.15
PonA1	-0.076	-0.89
EccD1_KO	-0.72	-0.243
EspI_KO	0.319	0.836
PE35_KO	0.61	0.767
PPE68_KO	-0.141	-0.339
glycerol2	-0.367	-0.619
lignocerate	-0.319	-0.203
oleate	-0.464	-0.391
phosphatidylcholine	-0.139	-0.303
acetate	0.708	1.405
glucAc	1.398	1.746
Rv0950ko	0.09	0.772
Rv1096ko	0.223	0.072
Rv3684ko	-0.102	-0.039
delta_otsA_trehalose	0.66	0.517