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 Rv1894c/-:

update plot	correlation	link to info on gene
Rv1834/lipZ	(cc=0.6359)	info on Rv1834/lipZ
Rv3295/-	(cc=0.6062)	info on Rv3295/-
Rv1734c/-	(cc=0.5995)	info on Rv1734c/-
Rv0540/-	(cc=0.5729)	info on Rv0540/-
Rv3059/cyp136	(cc=0.5715)	info on Rv3059/cyp136
Rv2633c/-	(cc=0.5691)	info on Rv2633c/-
Rv1467c/fadE15	(cc=0.5609)	info on Rv1467c/fadE15
Rv2030c/-	(cc=0.5563)	info on Rv2030c/-
Rv1041c/-	(cc=0.5561)	info on Rv1041c/-
Rv2642/-	(cc=0.5404)	info on Rv2642/-

Correlation of Rv1894c/- with Rv2642/-

Normalized LFCs for Rv1894c/-:
(description and provenance of datasets)

	Rv1894c/-	Rv2642/-
Fe_supp_jason_reseq	-0.472	0.534
low_pH_jason_reseq	-0.959	-1.188
NO_jason_reseq	0.588	1.089
B6_jason_reseq	0.018	-0.717
MHCII_jason_reseq	0.616	0.189
Isoniazid02	-0.904	-0.607
Rifampicin4	-0.125	-1.451
Ethambutol3	-0.181	-0.18
Meropenem3	1.114	0.401
Vancomycin16	-0.695	-0.814
Rv2680_day32	-0.345	-1.039
H37Rv_KO_MarP	0.058	-0.498
hypoxia_3wks	-0.283	1.368
hypoxia_6wks	0.079	0.211
glycerol	0.064	1.198
cholesterol	0.043	1.021
AJ	-0.061	-0.743
Bibs02	0.083	-0.026
Bibs02c	-0.059	-0.826
BL6	-0.702	-3.323
BL6a	-0.41	-0.882
BXD01	-0.256	-1.008
BXD010	-0.792	-0.453
BXD011	0.4	-0.655
BXD03	-1.064	-0.25
BXD04	-1.142	-1.593
BXD05	-0.608	-0.682
BXD06	-0.848	-1.033
BXD07	-0.978	-1.235
BXD08	-0.337	-0.47
BXD09	-0.823	-0.815
CAST	0.656	0.564
CCcont	-1.281	-2.885
DS01	0.175	0.281
DS02	-0.129	0.35
DS04	-0.022	0.197
DS0c	-0.233	0.368
GP01	-0.748	-0.182
GP02	0.116	-1.424
GP0c	-0.767	0.241
NOD	1.357	1.132
NZO	0.244	-0.019
PWK	0.392	-1.239
H37Rv_KO_CtpC	-0.069	-1.486
H37Rv_KO_CtpD	-0.838	0.358
H37Rv_KO_Rv1272	0.064	0.222
H37Rv_KO_SugABC	0.722	1.045
H37Rv_KO_MbtN	0.827	-1.097
Trans05	0.568	1.047
macrophage_unactivated	-0.884	-1.354
IL1	-0.578	-0.062
Rapamycin	-0.957	-0.629
Tcell	-0.541	-0.323
GMCSF	-0.325	-1.745
IFNab	-0.895	0.033
IFNg	-1.269	-1.384
IFNg_GMCSF1	0.06	0.707
Rv1432_day32	0.13	0.596
Rv1565c_day32	0.289	1.041
secA2_input	-0.009	1.077
delta_Rv3594	0.217	-0.626
delta_Rv3717	0.019	-0.617
delta_Rv3811	0.311	-0.344
delta_Rv0954	-0.19	0.023
PonA1	0.473	1.382
EccD1_KO	0.191	0.145
EspI_KO	0.202	0.414
PE35_KO	0.289	-0.114
PPE68_KO	0.042	-0.515
glycerol2	0.769	0.273
lignocerate	0.418	-0.623
oleate	1.127	1.224
phosphatidylcholine	0.973	0.217
acetate	-0.495	-1.386
glucAc	-0.634	-4.616
Rv0950ko	0.959	0.365
Rv1096ko	0.576	1.339
Rv3684ko	0.75	0.216
delta_otsA_trehalose	0.739	2.703