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 Rv0827c/kmtR:

update plot	correlation	link to info on gene
Rv0370c/-	(cc=0.5373)	info on Rv0370c/-
Rv0845/-	(cc=0.5165)	info on Rv0845/-
Rv0277c/vapC25	(cc=0.5031)	info on Rv0277c/vapC25
Rv1167c/-	(cc=0.4891)	info on Rv1167c/-
Rv3398c/idsA1	(cc=0.4831)	info on Rv3398c/idsA1
Rv1526c/-	(cc=0.4824)	info on Rv1526c/-
Rv2673/aftC	(cc=0.4771)	info on Rv2673/aftC
Rv3828c/-	(cc=0.4598)	info on Rv3828c/-
Rv1662/pks8	(cc=0.4569)	info on Rv1662/pks8
Rv3070/-	(cc=0.4484)	info on Rv3070/-

Correlation of Rv0827c/kmtR with Rv0845/-

Normalized LFCs for Rv0827c/kmtR:
(description and provenance of datasets)

	Rv0827c/kmtR	Rv0845/-
Fe_supp_jason_reseq	-2.06	-0.38
low_pH_jason_reseq	1.128	0.815
NO_jason_reseq	-0.942	-0.41
B6_jason_reseq	-2.511	-0.712
MHCII_jason_reseq	-3.0	-1.227
Isoniazid02	-1.307	0.972
Rifampicin4	0.303	-0.081
Ethambutol3	-0.845	0.472
Meropenem3	-1.276	-0.097
Vancomycin16	-0.883	0.204
Rv2680_day32	0.018	-0.313
H37Rv_KO_MarP	1.192	0.141
hypoxia_3wks	-0.694	-0.088
hypoxia_6wks	0.416	-0.14
glycerol	-1.401	-0.767
cholesterol	-0.766	-0.413
AJ	0.301	0.0
Bibs02	0.954	0.947
Bibs02c	-0.629	0.226
BL6	0.837	-0.073
BL6a	0.387	0.426
BXD01	0.703	0.572
BXD010	0.131	0.861
BXD011	1.34	0.568
BXD03	-0.25	0.445
BXD04	0.562	0.457
BXD05	0.499	-0.095
BXD06	0.849	0.223
BXD07	0.96	0.259
BXD08	0.656	0.392
BXD09	1.112	0.497
CAST	0.48	0.537
CCcont	1.683	-0.035
DS01	-1.372	0.349
DS02	0.9	-0.347
DS04	0.304	0.287
DS0c	0.368	0.321
GP01	-1.978	-0.119
GP02	-1.667	-1.034
GP0c	-2.605	-1.132
NOD	0.068	0.376
NZO	0.63	1.046
PWK	0.145	0.192
H37Rv_KO_CtpC	3.761	0.713
H37Rv_KO_CtpD	1.266	0.797
H37Rv_KO_Rv1272	1.942	0.65
H37Rv_KO_SugABC	-0.63	0.814
H37Rv_KO_MbtN	-0.289	0.723
Trans05	1.185	1.127
macrophage_unactivated	1.288	1.026
IL1	-0.581	0.531
Rapamycin	0.347	0.632
Tcell	1.58	0.202
GMCSF	0.333	1.085
IFNab	1.176	0.187
IFNg	1.539	0.732
IFNg_GMCSF1	-0.962	0.0
Rv1432_day32	-0.763	0.407
Rv1565c_day32	-0.134	0.379
secA2_input	0.244	-0.369
delta_Rv3594	-0.85	-0.174
delta_Rv3717	-1.097	-0.656
delta_Rv3811	-0.233	0.171
delta_Rv0954	1.264	0.213
PonA1	1.221	-0.365
EccD1_KO	0.99	0.763
EspI_KO	1.526	0.63
PE35_KO	0.12	0.333
PPE68_KO	0.739	0.288
glycerol2	-1.473	0.025
lignocerate	-0.48	-0.15
oleate	-1.859	0.364
phosphatidylcholine	-0.866	0.025
acetate	-0.048	-0.323
glucAc	0.626	-0.577
Rv0950ko	0.669	0.033
Rv1096ko	-0.106	-0.133
Rv3684ko	0.681	0.141
delta_otsA_trehalose	1.027	-0.421