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 Rv1053c/-:

update plot	correlation	link to info on gene
Rv0984/moaB2	(cc=0.5196)	info on Rv0984/moaB2
Rv1735c/-	(cc=0.5154)	info on Rv1735c/-
Rv1052/-	(cc=0.5081)	info on Rv1052/-
Rv1734c/-	(cc=0.498)	info on Rv1734c/-
Rv0540/-	(cc=0.491)	info on Rv0540/-
Rv1357c/-	(cc=0.4746)	info on Rv1357c/-
Rv2958c/-	(cc=0.4712)	info on Rv2958c/-
Rv3607c/folB	(cc=0.4686)	info on Rv3607c/folB
Rv1989c/-	(cc=0.4633)	info on Rv1989c/-
Rv2030c/-	(cc=0.4614)	info on Rv2030c/-

Correlation of Rv1053c/- with Rv1357c/-

Normalized LFCs for Rv1053c/-:
(description and provenance of datasets)

	Rv1053c/-	Rv1357c/-
Fe_supp_jason_reseq	3.157	0.75
low_pH_jason_reseq	-0.586	-0.13
NO_jason_reseq	0.215	0.079
B6_jason_reseq	1.558	0.814
MHCII_jason_reseq	1.647	0.114
Isoniazid02	0.023	-0.29
Rifampicin4	-0.374	0.114
Ethambutol3	0.259	-0.145
Meropenem3	1.366	-0.258
Vancomycin16	-0.088	-0.037
Rv2680_day32	-0.332	0.332
H37Rv_KO_MarP	-0.48	-0.656
hypoxia_3wks	0.455	0.618
hypoxia_6wks	-0.814	-0.589
glycerol	-1.483	-0.274
cholesterol	-0.441	0.418
AJ	0.318	0.202
Bibs02	1.495	0.649
Bibs02c	0.476	0.099
BL6	-2.01	-0.556
BL6a	0.019	0.268
BXD01	-0.658	-0.278
BXD010	-2.179	0.031
BXD011	0.413	-0.147
BXD03	0.38	0.118
BXD04	-0.409	-0.802
BXD05	-0.275	-0.563
BXD06	-0.653	-0.135
BXD07	-0.251	-0.359
BXD08	-0.532	0.008
BXD09	-0.582	-0.152
CAST	-0.287	0.225
CCcont	-1.318	-0.083
DS01	-0.597	0.245
DS02	1.352	0.0
DS04	-0.329	-0.184
DS0c	0.278	0.013
GP01	0.72	0.052
GP02	0.462	-0.046
GP0c	-0.313	-0.475
NOD	0.973	2.076
NZO	0.406	0.433
PWK	1.965	0.446
H37Rv_KO_CtpC	1.897	-0.565
H37Rv_KO_CtpD	-2.035	-0.328
H37Rv_KO_Rv1272	2.117	0.058
H37Rv_KO_SugABC	0.951	0.441
H37Rv_KO_MbtN	0.981	1.566
Trans05	0.64	0.383
macrophage_unactivated	-1.392	0.366
IL1	-1.542	-0.919
Rapamycin	-1.679	-0.42
Tcell	-1.271	-0.547
GMCSF	0.148	0.145
IFNab	-2.911	-0.475
IFNg	-0.208	-0.62
IFNg_GMCSF1	-0.503	-0.528
Rv1432_day32	0.784	0.961
Rv1565c_day32	0.156	1.327
secA2_input	-1.827	-0.695
delta_Rv3594	0.528	0.812
delta_Rv3717	0.706	0.941
delta_Rv3811	0.341	0.473
delta_Rv0954	-0.547	0.823
PonA1	-0.682	-1.133
EccD1_KO	0.701	0.796
EspI_KO	0.582	0.419
PE35_KO	1.21	1.313
PPE68_KO	1.353	0.979
glycerol2	0.056	0.071
lignocerate	1.36	0.862
oleate	0.251	0.0
phosphatidylcholine	0.469	0.232
acetate	-0.853	1.32
glucAc	-0.913	0.55
Rv0950ko	-0.724	0.386
Rv1096ko	-0.024	0.109
Rv3684ko	0.324	-0.039
delta_otsA_trehalose	0.518	0.807