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 Rv3384c/vapC46:

update plot	correlation	link to info on gene
Rv3860/-	(cc=0.5503)	info on Rv3860/-
Rv3022A/PE29	(cc=0.4382)	info on Rv3022A/PE29
Rv3798/-	(cc=0.4171)	info on Rv3798/-
Rv0860/fadB	(cc=0.4168)	info on Rv0860/fadB
Rv1225c/-	(cc=0.4107)	info on Rv1225c/-
Rv2812/-	(cc=0.4059)	info on Rv2812/-
Rv1961/-	(cc=0.4032)	info on Rv1961/-
Rv1878/glnA3	(cc=0.3965)	info on Rv1878/glnA3
Rv1951c/-	(cc=0.3955)	info on Rv1951c/-
Rv2154c/ftsW	(cc=0.3867)	info on Rv2154c/ftsW

Correlation of Rv3384c/vapC46 with Rv1225c/-

Normalized LFCs for Rv3384c/vapC46:
(description and provenance of datasets)

	Rv3384c/vapC46	Rv1225c/-
Fe_supp_jason_reseq	-1.924	0.166
low_pH_jason_reseq	-0.848	-1.839
NO_jason_reseq	-0.606	-0.971
B6_jason_reseq	-1.495	-0.652
MHCII_jason_reseq	-2.384	-0.388
Isoniazid02	0.313	1.232
Rifampicin4	0.899	-0.233
Ethambutol3	0.624	1.828
Meropenem3	0.648	0.134
Vancomycin16	0.881	0.034
Rv2680_day32	-2.671	-1.898
H37Rv_KO_MarP	0.667	0.962
hypoxia_3wks	-0.65	0.02
hypoxia_6wks	-2.334	-0.305
glycerol	-0.304	-0.269
cholesterol	0.191	0.101
AJ	1.887	0.941
Bibs02	1.09	-0.017
Bibs02c	-1.446	0.403
BL6	-1.546	1.054
BL6a	-0.822	1.224
BXD01	-1.54	0.494
BXD010	-0.817	0.273
BXD011	-0.937	0.521
BXD03	0.418	1.28
BXD04	-0.322	1.625
BXD05	0.529	1.146
BXD06	-0.246	0.351
BXD07	0.083	0.199
BXD08	-0.142	0.715
BXD09	0.206	0.62
CAST	-0.551	-0.988
CCcont	-0.087	0.794
DS01	0.448	0.067
DS02	-0.4	-0.243
DS04	-2.363	-0.977
DS0c	-0.726	-0.255
GP01	0.377	0.182
GP02	0.404	1.224
GP0c	0.0	-0.038
NOD	-1.704	-0.426
NZO	1.098	0.201
PWK	0.686	-0.703
H37Rv_KO_CtpC	1.131	1.589
H37Rv_KO_CtpD	-0.276	0.717
H37Rv_KO_Rv1272	0.5	0.272
H37Rv_KO_SugABC	0.808	0.356
H37Rv_KO_MbtN	1.899	-0.025
Trans05	-0.932	-0.425
macrophage_unactivated	0.401	0.085
IL1	-0.656	1.317
Rapamycin	0.083	1.102
Tcell	-0.85	0.485
GMCSF	0.634	0.61
IFNab	0.23	0.901
IFNg	0.802	0.388
IFNg_GMCSF1	-0.053	0.22
Rv1432_day32	-0.065	0.859
Rv1565c_day32	-0.599	-0.469
secA2_input	-0.728	-0.294
delta_Rv3594	0.665	0.315
delta_Rv3717	0.437	0.043
delta_Rv3811	1.132	0.333
delta_Rv0954	-0.222	0.625
PonA1	-1.07	0.899
EccD1_KO	0.77	1.299
EspI_KO	0.896	1.908
PE35_KO	0.335	1.286
PPE68_KO	0.086	0.902
glycerol2	-1.77	0.45
lignocerate	0.223	0.509
oleate	-3.424	0.42
phosphatidylcholine	-0.95	0.681
acetate	0.261	0.263
glucAc	0.216	0.306
Rv0950ko	-0.929	-0.389
Rv1096ko	-1.285	-0.645
Rv3684ko	-1.205	-0.829
delta_otsA_trehalose	-1.541	-1.323