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 Rv1373/-:

update plot	correlation	link to info on gene
Rv0231/fadE4	(cc=0.6293)	info on Rv0231/fadE4
Rv3840/-	(cc=0.5898)	info on Rv3840/-
Rv2390c/-	(cc=0.5798)	info on Rv2390c/-
Rv3397c/phyA	(cc=0.5554)	info on Rv3397c/phyA
Rv0831c/-	(cc=0.5434)	info on Rv0831c/-
Rv1923/lipD	(cc=0.5376)	info on Rv1923/lipD
Rv1500/-	(cc=0.5352)	info on Rv1500/-
Rv0160c/PE4	(cc=0.5322)	info on Rv0160c/PE4
Rv3324c/moaC3	(cc=0.5279)	info on Rv3324c/moaC3
Rv0975c/fadE13	(cc=0.5218)	info on Rv0975c/fadE13

Correlation of Rv1373/- with Rv3840/-

Normalized LFCs for Rv1373/-:
(description and provenance of datasets)

	Rv1373/-	Rv3840/-
Fe_supp_jason_reseq	-0.068	-0.158
low_pH_jason_reseq	-0.259	-1.121
NO_jason_reseq	-0.037	0.129
B6_jason_reseq	0.623	-0.108
MHCII_jason_reseq	0.244	-0.192
Isoniazid02	-0.882	-0.764
Rifampicin4	-0.409	-0.374
Ethambutol3	-1.194	-0.652
Meropenem3	-0.418	0.43
Vancomycin16	-0.61	-0.584
Rv2680_day32	0.114	0.162
H37Rv_KO_MarP	0.257	0.182
hypoxia_3wks	-0.02	0.191
hypoxia_6wks	0.167	0.311
glycerol	-0.335	-0.032
cholesterol	-0.043	0.119
AJ	0.439	0.21
Bibs02	-0.183	0.123
Bibs02c	-0.306	-0.69
BL6	0.607	0.27
BL6a	0.065	-0.059
BXD01	0.35	0.375
BXD010	0.702	0.567
BXD011	0.907	0.188
BXD03	0.698	0.728
BXD04	0.755	0.453
BXD05	0.241	0.83
BXD06	0.513	0.55
BXD07	0.067	0.367
BXD08	0.514	0.353
BXD09	0.532	0.68
CAST	0.529	0.402
CCcont	0.136	-0.058
DS01	0.058	0.05
DS02	-0.392	0.537
DS04	0.2	0.233
DS0c	0.105	0.167
GP01	0.44	0.636
GP02	1.553	1.625
GP0c	0.518	0.811
NOD	1.183	0.439
NZO	0.364	-0.095
PWK	0.111	0.323
H37Rv_KO_CtpC	0.215	0.238
H37Rv_KO_CtpD	0.648	0.113
H37Rv_KO_Rv1272	0.48	0.542
H37Rv_KO_SugABC	0.915	0.935
H37Rv_KO_MbtN	0.345	0.526
Trans05	1.058	-0.102
macrophage_unactivated	0.262	-0.076
IL1	0.578	-0.208
Rapamycin	0.847	0.47
Tcell	0.401	0.166
GMCSF	0.525	0.111
IFNab	0.0	0.49
IFNg	0.543	0.2
IFNg_GMCSF1	0.233	0.101
Rv1432_day32	-0.378	0.349
Rv1565c_day32	-0.201	0.039
secA2_input	-0.29	0.377
delta_Rv3594	0.675	-0.415
delta_Rv3717	0.028	0.074
delta_Rv3811	0.097	-0.164
delta_Rv0954	0.075	-0.225
PonA1	0.067	-0.421
EccD1_KO	-0.105	-0.431
EspI_KO	0.177	-0.191
PE35_KO	0.073	-0.537
PPE68_KO	0.198	-0.576
glycerol2	0.567	0.314
lignocerate	0.588	-0.073
oleate	0.656	0.625
phosphatidylcholine	0.774	0.108
acetate	0.108	-0.487
glucAc	0.023	-0.564
Rv0950ko	0.802	0.697
Rv1096ko	0.214	0.0
Rv3684ko	0.419	0.049
delta_otsA_trehalose	-0.693	-1.073