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 Rv1923/lipD

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

	Rv1373/-	Rv1923/lipD
Fe_supp_jason_reseq	-0.068	0.423
low_pH_jason_reseq	-0.259	-0.189
NO_jason_reseq	-0.037	-0.137
B6_jason_reseq	0.623	0.493
MHCII_jason_reseq	0.244	0.496
Isoniazid02	-0.882	-1.609
Rifampicin4	-0.409	0.187
Ethambutol3	-1.194	-1.132
Meropenem3	-0.418	0.086
Vancomycin16	-0.61	-0.828
Rv2680_day32	0.114	-0.194
H37Rv_KO_MarP	0.257	-0.048
hypoxia_3wks	-0.02	-0.522
hypoxia_6wks	0.167	0.117
glycerol	-0.335	-0.095
cholesterol	-0.043	-0.195
AJ	0.439	0.052
Bibs02	-0.183	-0.303
Bibs02c	-0.306	-0.073
BL6	0.607	-0.1
BL6a	0.065	0.103
BXD01	0.35	0.068
BXD010	0.702	0.359
BXD011	0.907	0.383
BXD03	0.698	0.179
BXD04	0.755	0.173
BXD05	0.241	0.262
BXD06	0.513	0.145
BXD07	0.067	0.16
BXD08	0.514	-0.496
BXD09	0.532	0.364
CAST	0.529	-0.035
CCcont	0.136	-0.322
DS01	0.058	0.072
DS02	-0.392	-0.11
DS04	0.2	-0.523
DS0c	0.105	-0.19
GP01	0.44	1.082
GP02	1.553	1.378
GP0c	0.518	0.559
NOD	1.183	0.431
NZO	0.364	-0.053
PWK	0.111	-0.213
H37Rv_KO_CtpC	0.215	0.232
H37Rv_KO_CtpD	0.648	0.21
H37Rv_KO_Rv1272	0.48	0.324
H37Rv_KO_SugABC	0.915	0.168
H37Rv_KO_MbtN	0.345	0.737
Trans05	1.058	0.498
macrophage_unactivated	0.262	-1.086
IL1	0.578	-0.306
Rapamycin	0.847	-0.408
Tcell	0.401	-0.694
GMCSF	0.525	-0.14
IFNab	0.0	-0.206
IFNg	0.543	-0.54
IFNg_GMCSF1	0.233	-0.198
Rv1432_day32	-0.378	0.179
Rv1565c_day32	-0.201	-0.128
secA2_input	-0.29	-0.28
delta_Rv3594	0.675	-0.151
delta_Rv3717	0.028	0.367
delta_Rv3811	0.097	0.419
delta_Rv0954	0.075	0.088
PonA1	0.067	-0.27
EccD1_KO	-0.105	0.266
EspI_KO	0.177	-0.262
PE35_KO	0.073	-0.213
PPE68_KO	0.198	-0.134
glycerol2	0.567	0.35
lignocerate	0.588	0.392
oleate	0.656	0.247
phosphatidylcholine	0.774	0.49
acetate	0.108	0.156
glucAc	0.023	0.382
Rv0950ko	0.802	-0.021
Rv1096ko	0.214	0.118
Rv3684ko	0.419	0.023
delta_otsA_trehalose	-0.693	-0.383