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 Rv0463/-

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

	Rv0943c/-	Rv0463/-
Fe_supp_jason_reseq	-0.636	-0.008
low_pH_jason_reseq	0.283	-0.403
NO_jason_reseq	-0.058	-0.677
B6_jason_reseq	-0.556	-1.18
MHCII_jason_reseq	-0.54	-1.029
Isoniazid02	1.331	0.274
Rifampicin4	0.69	0.246
Ethambutol3	0.67	0.507
Meropenem3	0.2	1.163
Vancomycin16	0.703	0.992
Rv2680_day32	-1.037	0.272
H37Rv_KO_MarP	0.195	0.612
hypoxia_3wks	-0.116	-0.666
hypoxia_6wks	0.117	-0.15
glycerol	-0.328	-0.413
cholesterol	0.236	-1.723
AJ	-0.015	-1.213
Bibs02	0.625	0.762
Bibs02c	-0.246	1.006
BL6	0.304	0.576
BL6a	-0.013	0.428
BXD01	0.098	0.418
BXD010	0.332	-0.866
BXD011	0.854	0.7
BXD03	0.519	-0.718
BXD04	0.345	0.113
BXD05	0.473	0.048
BXD06	0.611	-0.146
BXD07	0.386	0.137
BXD08	1.259	0.201
BXD09	0.089	0.128
CAST	-0.652	-0.022
CCcont	0.158	1.167
DS01	0.719	-0.2
DS02	0.203	0.124
DS04	-1.057	-1.698
DS0c	0.042	-1.103
GP01	-0.215	-1.374
GP02	0.371	-1.038
GP0c	-0.653	-0.652
NOD	-0.199	-1.077
NZO	0.09	0.416
PWK	-0.607	-0.091
H37Rv_KO_CtpC	0.265	0.014
H37Rv_KO_CtpD	0.0	-0.982
H37Rv_KO_Rv1272	-0.474	-0.169
H37Rv_KO_SugABC	-1.462	-1.953
H37Rv_KO_MbtN	-0.72	-0.343
Trans05	0.205	1.108
macrophage_unactivated	-0.095	0.565
IL1	0.569	1.026
Rapamycin	0.282	0.654
Tcell	-0.072	1.144
GMCSF	-0.343	1.141
IFNab	0.088	1.022
IFNg	0.564	1.053
IFNg_GMCSF1	0.091	0.305
Rv1432_day32	-0.28	-0.43
Rv1565c_day32	-0.104	-0.144
secA2_input	-0.412	-0.601
delta_Rv3594	0.0	-1.196
delta_Rv3717	-0.454	-1.763
delta_Rv3811	-0.537	-0.971
delta_Rv0954	-0.395	-0.994
PonA1	0.519	-1.825
EccD1_KO	0.612	-0.335
EspI_KO	-0.071	0.927
PE35_KO	0.143	0.808
PPE68_KO	0.157	0.064
glycerol2	-0.115	0.977
lignocerate	0.485	0.718
oleate	0.302	0.217
phosphatidylcholine	0.325	0.462
acetate	0.482	0.903
glucAc	0.21	0.123
Rv0950ko	1.107	1.309
Rv1096ko	0.832	0.214
Rv3684ko	1.297	-0.449
delta_otsA_trehalose	-0.766	-1.296