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 Rv3070/-

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

	Rv0827c/kmtR	Rv3070/-
Fe_supp_jason_reseq	-2.06	-0.529
low_pH_jason_reseq	1.128	-0.878
NO_jason_reseq	-0.942	-0.494
B6_jason_reseq	-2.511	-1.15
MHCII_jason_reseq	-3.0	-0.669
Isoniazid02	-1.307	-0.035
Rifampicin4	0.303	-0.996
Ethambutol3	-0.845	-0.524
Meropenem3	-1.276	-0.422
Vancomycin16	-0.883	-0.369
Rv2680_day32	0.018	0.899
H37Rv_KO_MarP	1.192	0.233
hypoxia_3wks	-0.694	-0.088
hypoxia_6wks	0.416	0.28
glycerol	-1.401	-0.788
cholesterol	-0.766	-0.981
AJ	0.301	1.077
Bibs02	0.954	0.838
Bibs02c	-0.629	1.085
BL6	0.837	0.327
BL6a	0.387	1.378
BXD01	0.703	0.993
BXD010	0.131	0.792
BXD011	1.34	0.285
BXD03	-0.25	1.018
BXD04	0.562	0.43
BXD05	0.499	0.237
BXD06	0.849	1.196
BXD07	0.96	0.75
BXD08	0.656	0.944
BXD09	1.112	0.991
CAST	0.48	0.586
CCcont	1.683	1.06
DS01	-1.372	-0.068
DS02	0.9	0.469
DS04	0.304	1.018
DS0c	0.368	0.273
GP01	-1.978	-0.706
GP02	-1.667	-1.474
GP0c	-2.605	-0.117
NOD	0.068	1.015
NZO	0.63	-0.724
PWK	0.145	0.735
H37Rv_KO_CtpC	3.761	0.934
H37Rv_KO_CtpD	1.266	0.44
H37Rv_KO_Rv1272	1.942	0.637
H37Rv_KO_SugABC	-0.63	-1.705
H37Rv_KO_MbtN	-0.289	-1.164
Trans05	1.185	0.445
macrophage_unactivated	1.288	0.726
IL1	-0.581	0.771
Rapamycin	0.347	0.393
Tcell	1.58	0.626
GMCSF	0.333	0.317
IFNab	1.176	0.212
IFNg	1.539	0.831
IFNg_GMCSF1	-0.962	1.241
Rv1432_day32	-0.763	-0.257
Rv1565c_day32	-0.134	0.12
secA2_input	0.244	-0.177
delta_Rv3594	-0.85	1.054
delta_Rv3717	-1.097	-1.258
delta_Rv3811	-0.233	0.043
delta_Rv0954	1.264	0.89
PonA1	1.221	0.177
EccD1_KO	0.99	-0.082
EspI_KO	1.526	-0.736
PE35_KO	0.12	1.138
PPE68_KO	0.739	0.08
glycerol2	-1.473	0.342
lignocerate	-0.48	0.485
oleate	-1.859	0.116
phosphatidylcholine	-0.866	0.312
acetate	-0.048	0.146
glucAc	0.626	0.102
Rv0950ko	0.669	0.709
Rv1096ko	-0.106	1.173
Rv3684ko	0.681	2.227
delta_otsA_trehalose	1.027	0.049