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 Rv2356c/PPE40:

update plot	correlation	link to info on gene
Rv3650/PE33	(cc=0.5562)	info on Rv3650/PE33
Rv3858c/gltD	(cc=0.5221)	info on Rv3858c/gltD
Rv1918c/PPE35	(cc=0.5179)	info on Rv1918c/PPE35
Rv2735c/-	(cc=0.4971)	info on Rv2735c/-
Rv2190c/-	(cc=0.4896)	info on Rv2190c/-
Rv3489/-	(cc=0.4793)	info on Rv3489/-
Rv2067c/-	(cc=0.4614)	info on Rv2067c/-
Rv2678c/hemE	(cc=0.4582)	info on Rv2678c/hemE
Rv1507A/-	(cc=0.4471)	info on Rv1507A/-
Rv3425/PPE57	(cc=0.4463)	info on Rv3425/PPE57

Correlation of Rv2356c/PPE40 with Rv2190c/-

Normalized LFCs for Rv2356c/PPE40:
(description and provenance of datasets)

	Rv2356c/PPE40	Rv2190c/-
Fe_supp_jason_reseq	0.65	2.516
low_pH_jason_reseq	0.139	-0.221
NO_jason_reseq	-0.984	-3.877
B6_jason_reseq	-0.202	-0.596
MHCII_jason_reseq	0.447	-0.565
Isoniazid02	-0.036	0.563
Rifampicin4	0.701	-3.541
Ethambutol3	0.102	-2.182
Meropenem3	-0.138	-0.786
Vancomycin16	0.403	-4.51
Rv2680_day32	0.677	2.417
H37Rv_KO_MarP	0.102	-6.0
hypoxia_3wks	-0.471	-2.767
hypoxia_6wks	-0.405	-0.228
glycerol	-0.121	-0.098
cholesterol	0.105	2.214
AJ	0.257	-1.276
Bibs02	0.147	0.993
Bibs02c	0.456	1.306
BL6	0.519	3.063
BL6a	0.587	2.749
BXD01	-0.225	2.595
BXD010	0.189	2.438
BXD011	0.829	2.323
BXD03	0.435	2.42
BXD04	0.67	2.446
BXD05	0.87	3.337
BXD06	0.547	3.167
BXD07	0.111	2.933
BXD08	-0.177	2.286
BXD09	0.316	3.087
CAST	-0.158	-1.088
CCcont	0.049	3.364
DS01	-0.431	1.001
DS02	0.274	0.0
DS04	-0.169	1.359
DS0c	0.107	1.298
GP01	-0.034	1.498
GP02	0.378	-0.128
GP0c	-0.477	1.031
NOD	-0.905	-1.061
NZO	0.016	-1.263
PWK	-0.499	-0.786
H37Rv_KO_CtpC	0.105	2.295
H37Rv_KO_CtpD	0.384	1.805
H37Rv_KO_Rv1272	0.847	2.512
H37Rv_KO_SugABC	-0.295	1.815
H37Rv_KO_MbtN	0.957	4.046
Trans05	0.635	2.172
macrophage_unactivated	0.546	0.076
IL1	0.0	0.575
Rapamycin	0.117	-0.23
Tcell	-0.293	-0.329
GMCSF	0.364	0.568
IFNab	-0.429	1.103
IFNg	0.128	1.563
IFNg_GMCSF1	0.676	0.575
Rv1432_day32	0.018	2.996
Rv1565c_day32	-0.504	0.0
secA2_input	-1.141	-4.612
delta_Rv3594	0.626	2.299
delta_Rv3717	-0.292	2.896
delta_Rv3811	0.544	2.019
delta_Rv0954	0.686	0.358
PonA1	0.329	-0.825
EccD1_KO	-0.816	-1.766
EspI_KO	-0.836	-1.634
PE35_KO	-0.802	-3.246
PPE68_KO	-0.851	-1.411
glycerol2	-0.153	-0.531
lignocerate	-0.056	-0.462
oleate	-0.109	-0.537
phosphatidylcholine	-0.343	-0.531
acetate	0.595	1.15
glucAc	0.061	0.213
Rv0950ko	-0.139	-6.0
Rv1096ko	-0.561	-1.176
Rv3684ko	-0.524	-0.364
delta_otsA_trehalose	0.269	1.066