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 Rv0943c/-:

update plot	correlation	link to info on gene
Rv0478/deoC	(cc=0.4425)	info on Rv0478/deoC
Rv3735/-	(cc=0.4209)	info on Rv3735/-
Rv0100/-	(cc=0.419)	info on Rv0100/-
Rv3141/fadB4	(cc=0.4189)	info on Rv3141/fadB4
Rv3741c/-	(cc=0.4173)	info on Rv3741c/-
Rv2833c/ugpB	(cc=0.4127)	info on Rv2833c/ugpB
Rv0494/-	(cc=0.4061)	info on Rv0494/-
Rv0463/-	(cc=0.4057)	info on Rv0463/-
Rv2417c/-	(cc=0.3941)	info on Rv2417c/-
Rv2318/uspC	(cc=0.3815)	info on Rv2318/uspC

Correlation of Rv0943c/- with Rv2417c/-

Normalized LFCs for Rv0943c/-:
(description and provenance of datasets)

	Rv0943c/-	Rv2417c/-
Fe_supp_jason_reseq	-0.636	-0.069
low_pH_jason_reseq	0.283	0.868
NO_jason_reseq	-0.058	0.811
B6_jason_reseq	-0.556	-0.748
MHCII_jason_reseq	-0.54	0.233
Isoniazid02	1.331	1.5
Rifampicin4	0.69	0.585
Ethambutol3	0.67	0.694
Meropenem3	0.2	0.892
Vancomycin16	0.703	0.809
Rv2680_day32	-1.037	-1.132
H37Rv_KO_MarP	0.195	-0.253
hypoxia_3wks	-0.116	0.534
hypoxia_6wks	0.117	-0.393
glycerol	-0.328	-1.123
cholesterol	0.236	-0.381
AJ	-0.015	0.255
Bibs02	0.625	1.498
Bibs02c	-0.246	0.135
BL6	0.304	0.937
BL6a	-0.013	0.644
BXD01	0.098	0.808
BXD010	0.332	-0.642
BXD011	0.854	0.14
BXD03	0.519	-0.271
BXD04	0.345	0.648
BXD05	0.473	0.719
BXD06	0.611	0.513
BXD07	0.386	0.152
BXD08	1.259	0.224
BXD09	0.089	0.405
CAST	-0.652	0.355
CCcont	0.158	-0.076
DS01	0.719	-0.08
DS02	0.203	-0.816
DS04	-1.057	0.184
DS0c	0.042	1.136
GP01	-0.215	-0.05
GP02	0.371	-0.915
GP0c	-0.653	-0.652
NOD	-0.199	2.465
NZO	0.09	0.033
PWK	-0.607	-0.881
H37Rv_KO_CtpC	0.265	0.643
H37Rv_KO_CtpD	0.0	2.062
H37Rv_KO_Rv1272	-0.474	-0.312
H37Rv_KO_SugABC	-1.462	-1.419
H37Rv_KO_MbtN	-0.72	0.676
Trans05	0.205	-0.764
macrophage_unactivated	-0.095	1.386
IL1	0.569	0.347
Rapamycin	0.282	0.942
Tcell	-0.072	1.251
GMCSF	-0.343	0.863
IFNab	0.088	1.103
IFNg	0.564	0.925
IFNg_GMCSF1	0.091	0.509
Rv1432_day32	-0.28	0.18
Rv1565c_day32	-0.104	-0.289
secA2_input	-0.412	0.028
delta_Rv3594	0.0	1.013
delta_Rv3717	-0.454	-0.405
delta_Rv3811	-0.537	0.578
delta_Rv0954	-0.395	0.193
PonA1	0.519	0.539
EccD1_KO	0.612	1.184
EspI_KO	-0.071	0.06
PE35_KO	0.143	1.05
PPE68_KO	0.157	0.931
glycerol2	-0.115	0.042
lignocerate	0.485	-0.155
oleate	0.302	0.879
phosphatidylcholine	0.325	0.455
acetate	0.482	-0.052
glucAc	0.21	-0.661
Rv0950ko	1.107	0.793
Rv1096ko	0.832	1.668
Rv3684ko	1.297	2.171
delta_otsA_trehalose	-0.766	0.674