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 Rv2318/uspC

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

	Rv0943c/-	Rv2318/uspC
Fe_supp_jason_reseq	-0.636	1.013
low_pH_jason_reseq	0.283	-0.452
NO_jason_reseq	-0.058	0.352
B6_jason_reseq	-0.556	0.527
MHCII_jason_reseq	-0.54	0.193
Isoniazid02	1.331	0.713
Rifampicin4	0.69	-0.712
Ethambutol3	0.67	0.82
Meropenem3	0.2	0.0
Vancomycin16	0.703	0.743
Rv2680_day32	-1.037	0.38
H37Rv_KO_MarP	0.195	-0.618
hypoxia_3wks	-0.116	0.311
hypoxia_6wks	0.117	-0.056
glycerol	-0.328	-0.432
cholesterol	0.236	-0.057
AJ	-0.015	0.296
Bibs02	0.625	0.844
Bibs02c	-0.246	-0.447
BL6	0.304	0.739
BL6a	-0.013	0.624
BXD01	0.098	-0.051
BXD010	0.332	1.385
BXD011	0.854	2.132
BXD03	0.519	1.526
BXD04	0.345	-0.207
BXD05	0.473	0.405
BXD06	0.611	0.495
BXD07	0.386	0.152
BXD08	1.259	0.36
BXD09	0.089	0.249
CAST	-0.652	0.172
CCcont	0.158	0.265
DS01	0.719	-0.342
DS02	0.203	0.0
DS04	-1.057	-0.998
DS0c	0.042	-0.984
GP01	-0.215	1.43
GP02	0.371	-0.742
GP0c	-0.653	-0.025
NOD	-0.199	0.675
NZO	0.09	0.629
PWK	-0.607	-0.077
H37Rv_KO_CtpC	0.265	0.234
H37Rv_KO_CtpD	0.0	-0.574
H37Rv_KO_Rv1272	-0.474	-0.301
H37Rv_KO_SugABC	-1.462	-0.08
H37Rv_KO_MbtN	-0.72	-0.633
Trans05	0.205	0.959
macrophage_unactivated	-0.095	0.36
IL1	0.569	0.498
Rapamycin	0.282	0.178
Tcell	-0.072	0.0
GMCSF	-0.343	0.488
IFNab	0.088	0.345
IFNg	0.564	0.588
IFNg_GMCSF1	0.091	-0.255
Rv1432_day32	-0.28	-0.314
Rv1565c_day32	-0.104	0.595
secA2_input	-0.412	-0.852
delta_Rv3594	0.0	1.028
delta_Rv3717	-0.454	0.405
delta_Rv3811	-0.537	0.732
delta_Rv0954	-0.395	0.22
PonA1	0.519	1.019
EccD1_KO	0.612	0.181
EspI_KO	-0.071	-0.337
PE35_KO	0.143	-0.085
PPE68_KO	0.157	-0.378
glycerol2	-0.115	0.263
lignocerate	0.485	0.392
oleate	0.302	-0.442
phosphatidylcholine	0.325	0.213
acetate	0.482	0.69
glucAc	0.21	0.903
Rv0950ko	1.107	1.722
Rv1096ko	0.832	1.722
Rv3684ko	1.297	1.392
delta_otsA_trehalose	-0.766	0.05