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 Rv1117/-:

update plot	correlation	link to info on gene
Rv2396/PE_PGRS41	(cc=0.5174)	info on Rv2396/PE_PGRS41
Rv1646/PE17	(cc=0.5113)	info on Rv1646/PE17
Rv3065/mmr	(cc=0.5073)	info on Rv3065/mmr
Rv3184/-	(cc=0.4719)	info on Rv3184/-
Rv3884c/eccA2	(cc=0.4637)	info on Rv3884c/eccA2
Rv0830/-	(cc=0.4427)	info on Rv0830/-
Rv2950c/fadD29	(cc=0.4345)	info on Rv2950c/fadD29
Rv2639c/-	(cc=0.4339)	info on Rv2639c/-
Rv2957/-	(cc=0.4316)	info on Rv2957/-
Rv3749c/-	(cc=0.4311)	info on Rv3749c/-

Correlation of Rv1117/- with Rv3184/-

Normalized LFCs for Rv1117/-:
(description and provenance of datasets)

	Rv1117/-	Rv3184/-
Fe_supp_jason_reseq	0.325	-0.835
low_pH_jason_reseq	0.652	0.739
NO_jason_reseq	1.302	-0.585
B6_jason_reseq	0.628	-0.225
MHCII_jason_reseq	0.89	-0.662
Isoniazid02	-1.129	-0.423
Rifampicin4	0.249	-0.07
Ethambutol3	-0.731	0.783
Meropenem3	-0.321	-0.738
Vancomycin16	-0.215	-0.358
Rv2680_day32	0.432	-0.136
H37Rv_KO_MarP	-0.058	-0.392
hypoxia_3wks	-0.766	0.251
hypoxia_6wks	-2.107	-0.161
glycerol	-0.05	-0.576
cholesterol	-0.147	0.054
AJ	1.449	1.316
Bibs02	0.948	0.302
Bibs02c	1.676	0.758
BL6	-0.049	-0.357
BL6a	0.967	0.143
BXD01	0.889	0.56
BXD010	0.198	0.159
BXD011	-0.323	0.076
BXD03	0.727	0.228
BXD04	0.692	0.111
BXD05	0.086	0.524
BXD06	0.574	0.114
BXD07	0.525	0.273
BXD08	0.248	0.131
BXD09	0.195	0.065
CAST	0.906	0.651
CCcont	0.411	-0.354
DS01	0.385	0.59
DS02	0.11	0.816
DS04	0.429	0.548
DS0c	-0.099	0.742
GP01	0.369	1.005
GP02	2.489	1.225
GP0c	0.316	0.423
NOD	0.251	0.451
NZO	1.211	0.826
PWK	0.566	1.161
H37Rv_KO_CtpC	0.98	0.652
H37Rv_KO_CtpD	-0.532	0.125
H37Rv_KO_Rv1272	1.288	-0.034
H37Rv_KO_SugABC	1.45	0.68
H37Rv_KO_MbtN	0.819	1.069
Trans05	0.339	0.374
macrophage_unactivated	0.095	0.025
IL1	-1.818	-1.848
Rapamycin	-1.292	-1.636
Tcell	0.306	-1.395
GMCSF	-1.31	-1.436
IFNab	0.163	-2.029
IFNg	-1.686	-1.253
IFNg_GMCSF1	-1.1	-0.776
Rv1432_day32	-0.369	1.485
Rv1565c_day32	0.12	-0.695
secA2_input	2.365	-0.416
delta_Rv3594	0.587	0.321
delta_Rv3717	0.544	-0.36
delta_Rv3811	0.132	-0.464
delta_Rv0954	0.464	0.279
PonA1	0.542	-0.461
EccD1_KO	0.96	1.358
EspI_KO	1.694	1.999
PE35_KO	1.89	1.45
PPE68_KO	1.878	0.483
glycerol2	1.418	-0.324
lignocerate	0.784	-0.773
oleate	1.448	-0.359
phosphatidylcholine	0.98	-0.438
acetate	0.741	-0.083
glucAc	0.748	0.883
Rv0950ko	-0.425	-0.103
Rv1096ko	-0.495	0.199
Rv3684ko	-0.57	0.046
delta_otsA_trehalose	-1.122	-0.443