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 Rv2596/vapC40:

update plot	correlation	link to info on gene
Rv2490c/PE_PGRS43	(cc=0.4561)	info on Rv2490c/PE_PGRS43
Rv2474c/-	(cc=0.4384)	info on Rv2474c/-
Rv0278c/PE_PGRS3	(cc=0.4204)	info on Rv0278c/PE_PGRS3
Rv0649/fabD2	(cc=0.4066)	info on Rv0649/fabD2
Rv2076c/-	(cc=0.404)	info on Rv2076c/-
Rv2464c/-	(cc=0.3995)	info on Rv2464c/-
Rv2603c/-	(cc=0.3969)	info on Rv2603c/-
Rv3335c/-	(cc=0.3966)	info on Rv3335c/-
Rv2590/fadD9	(cc=0.3951)	info on Rv2590/fadD9
Rv0103c/ctpB	(cc=0.3839)	info on Rv0103c/ctpB

Correlation of Rv2596/vapC40 with Rv2590/fadD9

Normalized LFCs for Rv2596/vapC40:
(description and provenance of datasets)

	Rv2596/vapC40	Rv2590/fadD9
Fe_supp_jason_reseq	-0.341	-0.251
low_pH_jason_reseq	-1.031	-1.092
NO_jason_reseq	-0.383	-0.344
B6_jason_reseq	0.031	-0.253
MHCII_jason_reseq	0.499	-0.336
Isoniazid02	0.792	0.586
Rifampicin4	0.317	0.217
Ethambutol3	0.061	0.643
Meropenem3	0.155	0.516
Vancomycin16	0.493	0.013
Rv2680_day32	0.33	0.1
H37Rv_KO_MarP	-0.008	0.096
hypoxia_3wks	-0.08	0.263
hypoxia_6wks	0.248	0.228
glycerol	0.693	0.034
cholesterol	-0.044	0.205
AJ	-0.284	0.151
Bibs02	-0.123	0.007
Bibs02c	-0.371	-0.168
BL6	0.167	-0.06
BL6a	-0.121	-0.089
BXD01	-0.063	0.076
BXD010	-0.071	0.181
BXD011	0.565	0.198
BXD03	-0.179	0.084
BXD04	-0.352	-0.004
BXD05	-0.008	-0.069
BXD06	-0.044	0.048
BXD07	0.129	0.335
BXD08	0.239	-0.078
BXD09	0.061	0.211
CAST	-0.509	-0.063
CCcont	0.078	-0.547
DS01	-0.159	0.048
DS02	-0.058	0.058
DS04	0.122	0.101
DS0c	-0.231	0.182
GP01	-0.162	0.262
GP02	0.523	0.212
GP0c	-0.155	-0.081
NOD	-0.306	-0.023
NZO	-0.292	0.299
PWK	0.108	0.065
H37Rv_KO_CtpC	-1.074	-0.045
H37Rv_KO_CtpD	0.617	0.414
H37Rv_KO_Rv1272	-0.25	0.28
H37Rv_KO_SugABC	0.163	0.571
H37Rv_KO_MbtN	0.463	0.293
Trans05	-0.08	0.185
macrophage_unactivated	-0.221	0.42
IL1	-0.133	0.653
Rapamycin	-0.074	0.663
Tcell	-0.482	-0.075
GMCSF	0.597	0.462
IFNab	-0.314	0.565
IFNg	-0.053	0.265
IFNg_GMCSF1	-0.723	0.145
Rv1432_day32	0.434	0.389
Rv1565c_day32	0.115	-0.34
secA2_input	1.384	0.063
delta_Rv3594	0.268	0.35
delta_Rv3717	0.386	0.266
delta_Rv3811	-0.544	-0.065
delta_Rv0954	-0.204	0.096
PonA1	0.694	0.328
EccD1_KO	-0.174	0.263
EspI_KO	0.85	0.759
PE35_KO	0.28	-0.096
PPE68_KO	0.163	-0.019
glycerol2	0.321	0.639
lignocerate	0.621	0.566
oleate	0.337	0.929
phosphatidylcholine	0.613	0.831
acetate	0.61	-0.165
glucAc	0.507	-0.27
Rv0950ko	0.89	0.329
Rv1096ko	-0.398	0.428
Rv3684ko	0.599	0.396
delta_otsA_trehalose	-0.69	-0.627