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 Rv0494/-

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

	Rv0943c/-	Rv0494/-
Fe_supp_jason_reseq	-0.636	-1.149
low_pH_jason_reseq	0.283	0.611
NO_jason_reseq	-0.058	0.798
B6_jason_reseq	-0.556	-0.881
MHCII_jason_reseq	-0.54	-1.549
Isoniazid02	1.331	-0.355
Rifampicin4	0.69	1.059
Ethambutol3	0.67	0.719
Meropenem3	0.2	1.506
Vancomycin16	0.703	0.764
Rv2680_day32	-1.037	-0.808
H37Rv_KO_MarP	0.195	0.23
hypoxia_3wks	-0.116	-0.379
hypoxia_6wks	0.117	-0.464
glycerol	-0.328	0.222
cholesterol	0.236	-0.261
AJ	-0.015	-1.225
Bibs02	0.625	-1.179
Bibs02c	-0.246	-0.688
BL6	0.304	0.885
BL6a	-0.013	0.416
BXD01	0.098	0.392
BXD010	0.332	-1.185
BXD011	0.854	-0.508
BXD03	0.519	-1.002
BXD04	0.345	-0.129
BXD05	0.473	-0.382
BXD06	0.611	0.434
BXD07	0.386	-0.07
BXD08	1.259	0.762
BXD09	0.089	-0.2
CAST	-0.652	-0.976
CCcont	0.158	0.926
DS01	0.719	0.294
DS02	0.203	0.304
DS04	-1.057	-1.644
DS0c	0.042	1.535
GP01	-0.215	0.391
GP02	0.371	-0.915
GP0c	-0.653	0.5
NOD	-0.199	-1.518
NZO	0.09	-1.11
PWK	-0.607	-0.473
H37Rv_KO_CtpC	0.265	-1.098
H37Rv_KO_CtpD	0.0	1.383
H37Rv_KO_Rv1272	-0.474	-0.495
H37Rv_KO_SugABC	-1.462	-1.557
H37Rv_KO_MbtN	-0.72	-1.411
Trans05	0.205	0.22
macrophage_unactivated	-0.095	0.309
IL1	0.569	0.43
Rapamycin	0.282	0.445
Tcell	-0.072	0.472
GMCSF	-0.343	-0.045
IFNab	0.088	0.837
IFNg	0.564	1.609
IFNg_GMCSF1	0.091	-0.39
Rv1432_day32	-0.28	-0.473
Rv1565c_day32	-0.104	0.679
secA2_input	-0.412	0.369
delta_Rv3594	0.0	-0.373
delta_Rv3717	-0.454	-0.147
delta_Rv3811	-0.537	-0.152
delta_Rv0954	-0.395	0.071
PonA1	0.519	-0.262
EccD1_KO	0.612	0.756
EspI_KO	-0.071	0.288
PE35_KO	0.143	0.076
PPE68_KO	0.157	-0.627
glycerol2	-0.115	1.971
lignocerate	0.485	1.532
oleate	0.302	-0.286
phosphatidylcholine	0.325	0.819
acetate	0.482	1.357
glucAc	0.21	1.379
Rv0950ko	1.107	0.13
Rv1096ko	0.832	-0.766
Rv3684ko	1.297	1.176
delta_otsA_trehalose	-0.766	-1.478