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 Rv0740/-:

update plot	correlation	link to info on gene
Rv2644c/-	(cc=0.5214)	info on Rv2644c/-
Rv1574/-	(cc=0.5195)	info on Rv1574/-
Rv0584/-	(cc=0.4592)	info on Rv0584/-
Rv2848c/cobB	(cc=0.4519)	info on Rv2848c/cobB
Rv3175/-	(cc=0.4435)	info on Rv3175/-
Rv0926c/-	(cc=0.4291)	info on Rv0926c/-
Rv0902c/prrB	(cc=0.427)	info on Rv0902c/prrB
Rv0601c/-	(cc=0.4226)	info on Rv0601c/-
Rv0204c/-	(cc=0.418)	info on Rv0204c/-
Rv2901c/-	(cc=0.4103)	info on Rv2901c/-

Correlation of Rv0740/- with Rv0926c/-

Normalized LFCs for Rv0740/-:
(description and provenance of datasets)

	Rv0740/-	Rv0926c/-
Fe_supp_jason_reseq	0.069	0.06
low_pH_jason_reseq	1.802	0.519
NO_jason_reseq	0.774	0.05
B6_jason_reseq	1.02	-0.357
MHCII_jason_reseq	0.233	0.709
Isoniazid02	0.989	0.895
Rifampicin4	0.087	0.761
Ethambutol3	1.16	0.927
Meropenem3	0.688	0.022
Vancomycin16	0.17	0.414
Rv2680_day32	-1.013	-1.629
H37Rv_KO_MarP	-0.027	0.12
hypoxia_3wks	-1.854	-0.104
hypoxia_6wks	-1.063	-1.303
glycerol	-1.09	0.63
cholesterol	-0.158	0.111
AJ	-0.345	-0.629
Bibs02	-0.901	-0.391
Bibs02c	-0.203	-0.899
BL6	0.712	0.28
BL6a	0.089	0.274
BXD01	0.428	0.015
BXD010	-0.781	0.814
BXD011	0.235	0.753
BXD03	0.197	0.79
BXD04	0.826	0.552
BXD05	0.525	0.443
BXD06	0.031	0.634
BXD07	0.557	0.638
BXD08	0.465	0.298
BXD09	-0.218	0.414
CAST	0.566	0.474
CCcont	0.195	0.621
DS01	0.296	-0.224
DS02	0.147	-0.347
DS04	0.358	-0.388
DS0c	0.347	-0.493
GP01	-1.157	-1.476
GP02	-0.877	-0.641
GP0c	-0.753	-0.451
NOD	0.039	-0.132
NZO	-1.503	0.131
PWK	-0.215	0.108
H37Rv_KO_CtpC	-1.662	0.918
H37Rv_KO_CtpD	0.264	-0.015
H37Rv_KO_Rv1272	-0.317	0.25
H37Rv_KO_SugABC	-0.969	0.672
H37Rv_KO_MbtN	-0.706	-0.657
Trans05	-0.284	0.862
macrophage_unactivated	1.925	0.35
IL1	0.406	0.353
Rapamycin	1.178	0.838
Tcell	-0.147	-0.088
GMCSF	0.689	1.278
IFNab	0.29	0.623
IFNg	1.267	1.243
IFNg_GMCSF1	3.02	1.81
Rv1432_day32	-0.222	0.0
Rv1565c_day32	-1.579	-0.112
secA2_input	-1.105	0.556
delta_Rv3594	-1.444	0.359
delta_Rv3717	-0.789	-0.272
delta_Rv3811	-1.022	0.0
delta_Rv0954	0.15	0.457
PonA1	-0.668	-0.431
EccD1_KO	-0.141	-0.724
EspI_KO	0.0	0.242
PE35_KO	0.216	-0.403
PPE68_KO	0.186	-0.442
glycerol2	-0.129	0.113
lignocerate	0.0	-0.196
oleate	-1.602	-0.364
phosphatidylcholine	-0.384	-0.204
acetate	0.69	-0.023
glucAc	0.868	0.056
Rv0950ko	-0.292	1.067
Rv1096ko	0.407	0.754
Rv3684ko	-0.183	0.684
delta_otsA_trehalose	-0.138	-0.311