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 Rv3524/-:

update plot	correlation	link to info on gene
Rv0059/-	(cc=0.6203)	info on Rv0059/-
Rv1500/-	(cc=0.6056)	info on Rv1500/-
Rv3528c/-	(cc=0.6051)	info on Rv3528c/-
Rv0268c/-	(cc=0.5886)	info on Rv0268c/-
Rv2390c/-	(cc=0.5755)	info on Rv2390c/-
Rv0231/fadE4	(cc=0.562)	info on Rv0231/fadE4
Rv0588/yrbE2B	(cc=0.5534)	info on Rv0588/yrbE2B
Rv3156/nuoL	(cc=0.5297)	info on Rv3156/nuoL
Rv1021/-	(cc=0.529)	info on Rv1021/-
Rv3150/nuoF	(cc=0.5184)	info on Rv3150/nuoF

Correlation of Rv3524/- with Rv0588/yrbE2B

Normalized LFCs for Rv3524/-:
(description and provenance of datasets)

	Rv3524/-	Rv0588/yrbE2B
Fe_supp_jason_reseq	0.391	-0.254
low_pH_jason_reseq	-0.271	-0.761
NO_jason_reseq	0.181	-0.137
B6_jason_reseq	0.534	-0.85
MHCII_jason_reseq	0.474	-0.215
Isoniazid02	-0.239	-1.806
Rifampicin4	-0.444	-0.127
Ethambutol3	-1.001	-1.677
Meropenem3	-0.698	-1.681
Vancomycin16	-0.345	-0.639
Rv2680_day32	0.121	1.112
H37Rv_KO_MarP	-0.042	0.102
hypoxia_3wks	0.02	-0.399
hypoxia_6wks	0.136	-0.209
glycerol	-0.645	-0.645
cholesterol	-0.696	-0.574
AJ	-0.131	0.822
Bibs02	0.118	0.894
Bibs02c	0.668	-0.617
BL6	0.761	0.894
BL6a	0.465	0.512
BXD01	0.542	0.738
BXD010	0.707	0.843
BXD011	0.492	1.88
BXD03	0.38	-0.272
BXD04	0.599	1.036
BXD05	0.549	0.348
BXD06	0.527	1.015
BXD07	0.715	0.595
BXD08	0.706	0.753
BXD09	0.527	0.81
CAST	0.157	0.202
CCcont	0.577	0.73
DS01	0.127	-0.755
DS02	0.158	-0.748
DS04	0.461	0.07
DS0c	0.288	-0.165
GP01	0.428	0.882
GP02	-0.359	-0.047
GP0c	-0.251	0.24
NOD	0.036	-0.042
NZO	-0.016	0.306
PWK	0.142	-0.578
H37Rv_KO_CtpC	0.075	0.348
H37Rv_KO_CtpD	1.135	1.415
H37Rv_KO_Rv1272	1.129	1.169
H37Rv_KO_SugABC	0.097	0.45
H37Rv_KO_MbtN	-0.181	-0.656
Trans05	0.248	0.093
macrophage_unactivated	0.041	-0.057
IL1	-0.092	0.05
Rapamycin	0.068	-0.055
Tcell	-0.013	0.541
GMCSF	0.148	0.396
IFNab	0.067	0.051
IFNg	-0.035	0.315
IFNg_GMCSF1	-0.013	-0.654
Rv1432_day32	-0.317	0.169
Rv1565c_day32	0.0	0.621
secA2_input	-0.814	0.25
delta_Rv3594	-0.493	0.132
delta_Rv3717	-0.301	0.541
delta_Rv3811	-0.193	0.913
delta_Rv0954	0.058	0.842
PonA1	-0.364	0.546
EccD1_KO	-1.121	-0.635
EspI_KO	-0.525	-0.927
PE35_KO	-1.012	-2.042
PPE68_KO	-0.538	-1.699
glycerol2	0.056	-0.029
lignocerate	0.346	0.421
oleate	0.021	0.274
phosphatidylcholine	0.272	0.112
acetate	-0.166	0.0
glucAc	0.572	0.042
Rv0950ko	0.567	1.984
Rv1096ko	0.018	2.844
Rv3684ko	0.891	1.503
delta_otsA_trehalose	0.604	-0.55