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 Rv3233c/-:

update plot	correlation	link to info on gene
Rv2489c/-	(cc=0.6032)	info on Rv2489c/-
Rv2659c/-	(cc=0.5755)	info on Rv2659c/-
Rv3566c/nat	(cc=0.5612)	info on Rv3566c/nat
Rv1148c/-	(cc=0.5556)	info on Rv1148c/-
Rv0968/-	(cc=0.5528)	info on Rv0968/-
Rv2724c/fadE20	(cc=0.5394)	info on Rv2724c/fadE20
Rv3191c/-	(cc=0.5308)	info on Rv3191c/-
Rv1101c/-	(cc=0.5139)	info on Rv1101c/-
Rv0213c/-	(cc=0.494)	info on Rv0213c/-
Rv0343/iniC	(cc=0.4853)	info on Rv0343/iniC

Correlation of Rv3233c/- with Rv3191c/-

Normalized LFCs for Rv3233c/-:
(description and provenance of datasets)

	Rv3233c/-	Rv3191c/-
Fe_supp_jason_reseq	-0.284	-0.024
low_pH_jason_reseq	-0.992	-0.37
NO_jason_reseq	0.179	-0.06
B6_jason_reseq	0.054	0.47
MHCII_jason_reseq	0.65	0.448
Isoniazid02	-1.117	-1.929
Rifampicin4	0.236	0.625
Ethambutol3	-1.294	-2.151
Meropenem3	-1.702	-0.361
Vancomycin16	-0.947	-0.907
Rv2680_day32	0.518	0.071
H37Rv_KO_MarP	0.382	0.409
hypoxia_3wks	-0.247	-0.395
hypoxia_6wks	-0.578	-0.683
glycerol	-0.995	-0.176
cholesterol	0.292	-0.111
AJ	-0.034	0.424
Bibs02	-0.048	0.283
Bibs02c	0.382	0.57
BL6	0.252	-0.065
BL6a	-0.172	0.716
BXD01	-0.537	-0.167
BXD010	-0.443	0.178
BXD011	-0.305	0.436
BXD03	-0.016	0.247
BXD04	-0.282	0.221
BXD05	0.252	0.692
BXD06	-0.5	0.452
BXD07	-0.267	0.158
BXD08	-0.323	0.253
BXD09	-0.131	0.623
CAST	0.744	0.439
CCcont	-0.622	0.151
DS01	0.681	0.862
DS02	0.354	0.285
DS04	0.06	1.062
DS0c	0.327	0.292
GP01	0.382	0.304
GP02	-0.673	-0.484
GP0c	-0.455	-0.684
NOD	1.451	0.539
NZO	0.887	0.585
PWK	-0.064	0.624
H37Rv_KO_CtpC	-0.005	0.291
H37Rv_KO_CtpD	0.477	0.08
H37Rv_KO_Rv1272	-0.004	0.547
H37Rv_KO_SugABC	0.588	0.526
H37Rv_KO_MbtN	0.003	0.429
Trans05	-0.164	0.094
macrophage_unactivated	-0.069	-0.174
IL1	-0.632	-0.047
Rapamycin	-0.371	-0.169
Tcell	-0.414	-0.606
GMCSF	-0.029	0.013
IFNab	0.115	0.287
IFNg	-0.307	0.102
IFNg_GMCSF1	0.962	0.33
Rv1432_day32	0.098	0.316
Rv1565c_day32	0.415	-0.591
secA2_input	-0.704	-0.632
delta_Rv3594	-0.072	-0.08
delta_Rv3717	-0.185	-0.216
delta_Rv3811	0.39	0.025
delta_Rv0954	-0.146	-0.26
PonA1	0.898	0.123
EccD1_KO	0.0	-0.217
EspI_KO	0.031	0.371
PE35_KO	-0.146	0.082
PPE68_KO	-0.106	-0.189
glycerol2	-0.377	-0.113
lignocerate	-0.476	0.516
oleate	0.043	-0.413
phosphatidylcholine	-0.52	0.084
acetate	-0.986	0.57
glucAc	-0.808	0.485
Rv0950ko	0.482	0.109
Rv1096ko	0.591	0.38
Rv3684ko	0.553	0.301
delta_otsA_trehalose	-0.19	-0.138