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 Rv2759c/vapC42:

update plot	correlation	link to info on gene
Rv0233/nrdB	(cc=0.5105)	info on Rv0233/nrdB
Rv1864c/-	(cc=0.4818)	info on Rv1864c/-
Rv3309c/upp	(cc=0.4679)	info on Rv3309c/upp
Rv2306A/-	(cc=0.4662)	info on Rv2306A/-
Rv3504/fadE26	(cc=0.4647)	info on Rv3504/fadE26
Rv2489c/-	(cc=0.4554)	info on Rv2489c/-
Rv0271c/fadE6	(cc=0.4397)	info on Rv0271c/fadE6
Rv3770c/-	(cc=0.4386)	info on Rv3770c/-
Rv3740c/-	(cc=0.4382)	info on Rv3740c/-
Rv0359/-	(cc=0.4337)	info on Rv0359/-

Correlation of Rv2759c/vapC42 with Rv0271c/fadE6

Normalized LFCs for Rv2759c/vapC42:
(description and provenance of datasets)

	Rv2759c/vapC42	Rv0271c/fadE6
Fe_supp_jason_reseq	0.923	0.363
low_pH_jason_reseq	-1.611	-0.279
NO_jason_reseq	0.533	0.362
B6_jason_reseq	0.47	0.806
MHCII_jason_reseq	1.11	0.898
Isoniazid02	-0.335	0.314
Rifampicin4	-0.328	0.154
Ethambutol3	-0.322	0.82
Meropenem3	-0.083	-0.072
Vancomycin16	0.127	0.334
Rv2680_day32	-0.107	-0.056
H37Rv_KO_MarP	1.168	0.329
hypoxia_3wks	0.594	0.148
hypoxia_6wks	0.489	-0.19
glycerol	-0.26	-0.028
cholesterol	0.079	0.114
AJ	0.035	0.461
Bibs02	1.18	-0.211
Bibs02c	0.083	0.256
BL6	0.413	0.082
BL6a	0.28	-0.098
BXD01	-0.3	-0.082
BXD010	-0.202	-0.726
BXD011	-0.186	-0.357
BXD03	-0.594	-0.404
BXD04	-0.325	-1.126
BXD05	0.63	-0.307
BXD06	0.046	-0.316
BXD07	0.653	-0.171
BXD08	0.328	-0.292
BXD09	0.069	-0.12
CAST	-0.696	-0.197
CCcont	-0.556	-0.406
DS01	1.044	0.387
DS02	1.276	0.331
DS04	1.449	0.971
DS0c	2.003	0.585
GP01	0.559	-0.2
GP02	-0.24	-0.122
GP0c	0.99	0.086
NOD	0.879	0.163
NZO	0.308	-0.142
PWK	-0.155	-0.533
H37Rv_KO_CtpC	-0.751	-0.56
H37Rv_KO_CtpD	-0.636	0.387
H37Rv_KO_Rv1272	-0.096	-0.039
H37Rv_KO_SugABC	-0.122	0.655
H37Rv_KO_MbtN	0.132	-0.812
Trans05	0.162	-0.073
macrophage_unactivated	-1.073	-0.83
IL1	-0.952	-0.267
Rapamycin	0.249	-0.35
Tcell	-0.877	-0.691
GMCSF	0.174	-0.491
IFNab	0.139	0.033
IFNg	0.123	-0.179
IFNg_GMCSF1	-0.031	0.236
Rv1432_day32	0.548	0.117
Rv1565c_day32	0.095	0.589
secA2_input	0.346	0.337
delta_Rv3594	0.355	-1.221
delta_Rv3717	0.137	-0.599
delta_Rv3811	0.659	-0.271
delta_Rv0954	-0.543	-0.82
PonA1	0.037	0.021
EccD1_KO	0.648	-0.138
EspI_KO	0.22	-1.075
PE35_KO	-0.096	-0.796
PPE68_KO	0.227	-0.624
glycerol2	-0.395	0.213
lignocerate	-0.354	0.146
oleate	0.7	0.57
phosphatidylcholine	0.095	0.168
acetate	-0.469	0.171
glucAc	-1.168	0.019
Rv0950ko	0.492	0.911
Rv1096ko	1.2	1.176
Rv3684ko	1.208	1.064
delta_otsA_trehalose	0.45	-0.134