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 Rv0088/-:

update plot	correlation	link to info on gene
Rv1362c/-	(cc=0.5806)	info on Rv1362c/-
Rv3157/nuoM	(cc=0.5689)	info on Rv3157/nuoM
Rv2500c/fadE19	(cc=0.5156)	info on Rv2500c/fadE19
Rv0055/rpsR1	(cc=0.5105)	info on Rv0055/rpsR1
Rv3759c/proX	(cc=0.5037)	info on Rv3759c/proX
Rv2275/-	(cc=0.5002)	info on Rv2275/-
Rv2584c/apt	(cc=0.483)	info on Rv2584c/apt
Rv3166c/-	(cc=0.4817)	info on Rv3166c/-
Rv3529c/-	(cc=0.4772)	info on Rv3529c/-
Rv2185c/TB16.3	(cc=0.4684)	info on Rv2185c/TB16.3

Correlation of Rv0088/- with Rv3157/nuoM

Normalized LFCs for Rv0088/-:
(description and provenance of datasets)

	Rv0088/-	Rv3157/nuoM
Fe_supp_jason_reseq	-0.898	-0.35
low_pH_jason_reseq	1.047	-0.043
NO_jason_reseq	0.315	-1.089
B6_jason_reseq	-0.739	-0.15
MHCII_jason_reseq	0.06	-0.704
Isoniazid02	-0.319	0.738
Rifampicin4	0.295	0.298
Ethambutol3	0.347	1.145
Meropenem3	0.407	0.607
Vancomycin16	0.289	0.0
Rv2680_day32	0.593	0.101
H37Rv_KO_MarP	0.0	-1.098
hypoxia_3wks	0.371	0.538
hypoxia_6wks	0.0	-0.121
glycerol	0.0	-0.633
cholesterol	0.585	0.0
AJ	0.845	0.087
Bibs02	-0.109	-0.481
Bibs02c	-0.887	0.156
BL6	0.601	0.999
BL6a	1.435	1.276
BXD01	0.475	1.713
BXD010	0.238	1.134
BXD011	1.112	1.413
BXD03	1.264	1.197
BXD04	1.213	1.731
BXD05	1.304	1.235
BXD06	1.339	1.407
BXD07	1.243	1.554
BXD08	0.842	1.344
BXD09	1.394	1.313
CAST	-0.21	0.0
CCcont	1.187	1.082
DS01	-0.291	0.71
DS02	-0.922	0.082
DS04	-0.51	0.847
DS0c	0.063	0.652
GP01	-1.051	0.267
GP02	-0.102	-0.455
GP0c	0.474	0.6
NOD	-0.351	-0.591
NZO	0.767	1.111
PWK	0.632	0.806
H37Rv_KO_CtpC	-1.865	-0.51
H37Rv_KO_CtpD	0.899	0.095
H37Rv_KO_Rv1272	1.903	1.655
H37Rv_KO_SugABC	1.099	0.407
H37Rv_KO_MbtN	-1.097	-0.04
Trans05	0.928	1.517
macrophage_unactivated	0.66	0.66
IL1	1.124	-0.095
Rapamycin	0.144	-0.632
Tcell	-0.052	0.303
GMCSF	-0.217	-0.354
IFNab	0.834	0.0
IFNg	-0.131	-0.551
IFNg_GMCSF1	-0.368	-0.314
Rv1432_day32	0.0	0.391
Rv1565c_day32	-0.725	-0.725
secA2_input	-0.939	0.0
delta_Rv3594	-0.566	0.32
delta_Rv3717	-1.033	0.297
delta_Rv3811	-0.449	0.094
delta_Rv0954	-0.941	-0.266
PonA1	-1.708	-0.238
EccD1_KO	0.635	0.095
EspI_KO	0.0	0.317
PE35_KO	0.817	0.837
PPE68_KO	1.945	1.35
glycerol2	1.274	1.586
lignocerate	0.418	-0.552
oleate	0.601	2.273
phosphatidylcholine	0.594	-0.338
acetate	0.748	0.0
glucAc	0.172	0.485
Rv0950ko	-1.879	0.178
Rv1096ko	-1.33	-0.06
Rv3684ko	-0.91	-0.413
delta_otsA_trehalose	0.152	0.468