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 Rv3449/mycP4:

update plot	correlation	link to info on gene
Rv3363c/-	(cc=0.5712)	info on Rv3363c/-
Rv2909c/rpsP	(cc=0.571)	info on Rv2909c/rpsP
Rv3043c/ctaD	(cc=0.5664)	info on Rv3043c/ctaD
Rv0277c/vapC25	(cc=0.5595)	info on Rv0277c/vapC25
Rv3455c/truA	(cc=0.5484)	info on Rv3455c/truA
Rv0526/-	(cc=0.5336)	info on Rv0526/-
Rv2655c/-	(cc=0.5269)	info on Rv2655c/-
Rv3168/-	(cc=0.4976)	info on Rv3168/-
Rv3248c/sahH	(cc=0.4937)	info on Rv3248c/sahH
Rv3710/leuA	(cc=0.4808)	info on Rv3710/leuA

Correlation of Rv3449/mycP4 with Rv2909c/rpsP

Normalized LFCs for Rv3449/mycP4:
(description and provenance of datasets)

	Rv3449/mycP4	Rv2909c/rpsP
Fe_supp_jason_reseq	-1.108	0.415
low_pH_jason_reseq	0.577	0.0
NO_jason_reseq	0.832	0.0
B6_jason_reseq	-0.559	0.0
MHCII_jason_reseq	0.4	0.135
Isoniazid02	0.191	0.0
Rifampicin4	-0.125	0.0
Ethambutol3	-0.258	0.461
Meropenem3	0.515	0.701
Vancomycin16	0.196	0.0
Rv2680_day32	-0.403	0.0
H37Rv_KO_MarP	0.731	1.573
hypoxia_3wks	-0.215	-0.55
hypoxia_6wks	-0.2	-0.288
glycerol	1.204	0.554
cholesterol	0.557	0.0
AJ	0.235	0.0
Bibs02	0.69	0.0
Bibs02c	0.212	0.0
BL6	-0.168	0.0
BL6a	0.367	0.198
BXD01	0.886	0.0
BXD010	0.669	0.0
BXD011	-0.288	0.0
BXD03	-0.442	0.0
BXD04	0.783	0.0
BXD05	-0.672	0.0
BXD06	0.05	0.0
BXD07	-0.068	0.0
BXD08	-0.093	0.0
BXD09	0.167	0.0
CAST	0.152	0.0
CCcont	0.014	0.149
DS01	-0.046	0.0
DS02	-0.544	0.0
DS04	-0.908	0.0
DS0c	-0.68	0.0
GP01	-0.2	0.0
GP02	-0.188	0.0
GP0c	-0.391	0.0
NOD	0.692	0.0
NZO	0.185	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.301	0.0
H37Rv_KO_CtpD	-0.993	0.0
H37Rv_KO_Rv1272	-0.995	0.0
H37Rv_KO_SugABC	1.089	0.0
H37Rv_KO_MbtN	-0.246	0.0
Trans05	-0.264	0.0
macrophage_unactivated	-0.915	0.0
IL1	-0.044	0.0
Rapamycin	0.626	0.0
Tcell	0.863	0.0
GMCSF	-0.238	0.0
IFNab	-0.045	0.0
IFNg	-0.241	0.0
IFNg_GMCSF1	1.2	0.0
Rv1432_day32	-0.763	0.0
Rv1565c_day32	-0.728	0.0
secA2_input	1.476	-0.322
delta_Rv3594	-0.724	0.788
delta_Rv3717	-0.143	-0.61
delta_Rv3811	-0.21	-0.518
delta_Rv0954	-0.309	0.129
PonA1	-0.179	-0.402
EccD1_KO	-1.309	-0.454
EspI_KO	-0.596	-0.394
PE35_KO	-0.895	-0.403
PPE68_KO	-1.405	0.0
glycerol2	-2.382	-1.96
lignocerate	-1.579	-1.87
oleate	-2.328	-2.178
phosphatidylcholine	-2.088	-2.151
acetate	-2.1	-0.085
glucAc	-1.271	-1.588
Rv0950ko	-0.374	0.38
Rv1096ko	-0.247	-0.416
Rv3684ko	-1.012	-0.452
delta_otsA_trehalose	1.192	0.0