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 Rv2185c/TB16.3

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

	Rv0088/-	Rv2185c/TB16.3
Fe_supp_jason_reseq	-0.898	-0.701
low_pH_jason_reseq	1.047	0.07
NO_jason_reseq	0.315	3.145
B6_jason_reseq	-0.739	0.585
MHCII_jason_reseq	0.06	0.741
Isoniazid02	-0.319	0.0
Rifampicin4	0.295	-0.477
Ethambutol3	0.347	0.112
Meropenem3	0.407	0.972
Vancomycin16	0.289	-0.395
Rv2680_day32	0.593	0.824
H37Rv_KO_MarP	0.0	0.789
hypoxia_3wks	0.371	2.719
hypoxia_6wks	0.0	2.103
glycerol	0.0	0.767
cholesterol	0.585	-0.064
AJ	0.845	1.114
Bibs02	-0.109	0.04
Bibs02c	-0.887	0.045
BL6	0.601	2.768
BL6a	1.435	2.642
BXD01	0.475	3.504
BXD010	0.238	1.842
BXD011	1.112	2.894
BXD03	1.264	2.304
BXD04	1.213	2.256
BXD05	1.304	2.403
BXD06	1.339	2.823
BXD07	1.243	3.21
BXD08	0.842	2.579
BXD09	1.394	3.357
CAST	-0.21	-0.439
CCcont	1.187	1.992
DS01	-0.291	0.631
DS02	-0.922	0.047
DS04	-0.51	0.676
DS0c	0.063	1.215
GP01	-1.051	0.883
GP02	-0.102	1.052
GP0c	0.474	1.959
NOD	-0.351	-0.88
NZO	0.767	-0.134
PWK	0.632	0.163
H37Rv_KO_CtpC	-1.865	-0.856
H37Rv_KO_CtpD	0.899	0.818
H37Rv_KO_Rv1272	1.903	2.161
H37Rv_KO_SugABC	1.099	-0.357
H37Rv_KO_MbtN	-1.097	1.098
Trans05	0.928	1.263
macrophage_unactivated	0.66	0.761
IL1	1.124	-0.86
Rapamycin	0.144	-0.206
Tcell	-0.052	1.3
GMCSF	-0.217	-0.626
IFNab	0.834	0.671
IFNg	-0.131	-0.567
IFNg_GMCSF1	-0.368	0.135
Rv1432_day32	0.0	2.759
Rv1565c_day32	-0.725	-0.335
secA2_input	-0.939	0.092
delta_Rv3594	-0.566	0.884
delta_Rv3717	-1.033	1.24
delta_Rv3811	-0.449	0.741
delta_Rv0954	-0.941	-0.658
PonA1	-1.708	-1.11
EccD1_KO	0.635	-2.273
EspI_KO	0.0	-1.526
PE35_KO	0.817	-0.309
PPE68_KO	1.945	-0.8
glycerol2	1.274	2.172
lignocerate	0.418	0.082
oleate	0.601	-0.373
phosphatidylcholine	0.594	0.183
acetate	0.748	1.485
glucAc	0.172	1.409
Rv0950ko	-1.879	-1.423
Rv1096ko	-1.33	-0.814
Rv3684ko	-0.91	-1.019
delta_otsA_trehalose	0.152	-0.363