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 Rv3529c/-

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

	Rv0088/-	Rv3529c/-
Fe_supp_jason_reseq	-0.898	-0.403
low_pH_jason_reseq	1.047	-0.072
NO_jason_reseq	0.315	-0.289
B6_jason_reseq	-0.739	0.0
MHCII_jason_reseq	0.06	-0.2
Isoniazid02	-0.319	-0.521
Rifampicin4	0.295	-0.682
Ethambutol3	0.347	-0.146
Meropenem3	0.407	-0.666
Vancomycin16	0.289	-0.403
Rv2680_day32	0.593	-0.61
H37Rv_KO_MarP	0.0	0.038
hypoxia_3wks	0.371	0.052
hypoxia_6wks	0.0	0.336
glycerol	0.0	0.282
cholesterol	0.585	2.451
AJ	0.845	1.071
Bibs02	-0.109	0.595
Bibs02c	-0.887	-0.18
BL6	0.601	1.274
BL6a	1.435	0.389
BXD01	0.475	1.058
BXD010	0.238	1.599
BXD011	1.112	1.558
BXD03	1.264	1.098
BXD04	1.213	2.26
BXD05	1.304	1.574
BXD06	1.339	1.487
BXD07	1.243	1.124
BXD08	0.842	1.26
BXD09	1.394	0.921
CAST	-0.21	0.219
CCcont	1.187	1.006
DS01	-0.291	0.33
DS02	-0.922	0.173
DS04	-0.51	0.607
DS0c	0.063	0.484
GP01	-1.051	-0.05
GP02	-0.102	-0.312
GP0c	0.474	0.407
NOD	-0.351	0.501
NZO	0.767	0.964
PWK	0.632	1.007
H37Rv_KO_CtpC	-1.865	0.027
H37Rv_KO_CtpD	0.899	-0.132
H37Rv_KO_Rv1272	1.903	-0.563
H37Rv_KO_SugABC	1.099	0.548
H37Rv_KO_MbtN	-1.097	-0.517
Trans05	0.928	-0.69
macrophage_unactivated	0.66	-0.044
IL1	1.124	0.365
Rapamycin	0.144	-0.089
Tcell	-0.052	0.091
GMCSF	-0.217	0.185
IFNab	0.834	-0.133
IFNg	-0.131	0.433
IFNg_GMCSF1	-0.368	-0.782
Rv1432_day32	0.0	0.378
Rv1565c_day32	-0.725	-0.954
secA2_input	-0.939	-0.916
delta_Rv3594	-0.566	-0.828
delta_Rv3717	-1.033	-0.995
delta_Rv3811	-0.449	-0.248
delta_Rv0954	-0.941	-0.317
PonA1	-1.708	-1.633
EccD1_KO	0.635	-0.243
EspI_KO	0.0	0.394
PE35_KO	0.817	0.204
PPE68_KO	1.945	0.368
glycerol2	1.274	0.039
lignocerate	0.418	0.195
oleate	0.601	-0.061
phosphatidylcholine	0.594	0.171
acetate	0.748	0.203
glucAc	0.172	0.099
Rv0950ko	-1.879	0.211
Rv1096ko	-1.33	-0.109
Rv3684ko	-0.91	-0.118
delta_otsA_trehalose	0.152	-0.292