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 Rv0231/fadE4

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

	Rv1373/-	Rv0231/fadE4
Fe_supp_jason_reseq	-0.068	-0.27
low_pH_jason_reseq	-0.259	-0.589
NO_jason_reseq	-0.037	0.055
B6_jason_reseq	0.623	-0.164
MHCII_jason_reseq	0.244	0.242
Isoniazid02	-0.882	-1.326
Rifampicin4	-0.409	-1.993
Ethambutol3	-1.194	-1.448
Meropenem3	-0.418	-0.779
Vancomycin16	-0.61	-1.353
Rv2680_day32	0.114	0.253
H37Rv_KO_MarP	0.257	-0.268
hypoxia_3wks	-0.02	0.235
hypoxia_6wks	0.167	0.0
glycerol	-0.335	-0.813
cholesterol	-0.043	-0.205
AJ	0.439	0.249
Bibs02	-0.183	0.265
Bibs02c	-0.306	-0.091
BL6	0.607	0.279
BL6a	0.065	0.076
BXD01	0.35	0.244
BXD010	0.702	0.514
BXD011	0.907	0.682
BXD03	0.698	0.517
BXD04	0.755	0.876
BXD05	0.241	0.437
BXD06	0.513	0.504
BXD07	0.067	0.504
BXD08	0.514	0.613
BXD09	0.532	0.403
CAST	0.529	0.484
CCcont	0.136	0.057
DS01	0.058	0.046
DS02	-0.392	0.154
DS04	0.2	0.082
DS0c	0.105	0.074
GP01	0.44	0.696
GP02	1.553	0.201
GP0c	0.518	0.092
NOD	1.183	0.556
NZO	0.364	0.127
PWK	0.111	0.23
H37Rv_KO_CtpC	0.215	0.157
H37Rv_KO_CtpD	0.648	0.205
H37Rv_KO_Rv1272	0.48	0.607
H37Rv_KO_SugABC	0.915	0.15
H37Rv_KO_MbtN	0.345	0.361
Trans05	1.058	-0.062
macrophage_unactivated	0.262	-0.044
IL1	0.578	0.3
Rapamycin	0.847	0.242
Tcell	0.401	0.091
GMCSF	0.525	0.037
IFNab	0.0	-0.281
IFNg	0.543	0.198
IFNg_GMCSF1	0.233	0.902
Rv1432_day32	-0.378	0.189
Rv1565c_day32	-0.201	-0.077
secA2_input	-0.29	-0.326
delta_Rv3594	0.675	0.024
delta_Rv3717	0.028	-0.317
delta_Rv3811	0.097	-0.693
delta_Rv0954	0.075	0.081
PonA1	0.067	0.031
EccD1_KO	-0.105	-0.181
EspI_KO	0.177	-0.274
PE35_KO	0.073	-0.613
PPE68_KO	0.198	-0.323
glycerol2	0.567	-0.126
lignocerate	0.588	-0.104
oleate	0.656	0.113
phosphatidylcholine	0.774	-0.007
acetate	0.108	-0.567
glucAc	0.023	-0.394
Rv0950ko	0.802	0.528
Rv1096ko	0.214	0.528
Rv3684ko	0.419	-0.02
delta_otsA_trehalose	-0.693	0.0