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 Rv0370c/-

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

	Rv0827c/kmtR	Rv0370c/-
Fe_supp_jason_reseq	-2.06	-0.553
low_pH_jason_reseq	1.128	1.696
NO_jason_reseq	-0.942	0.42
B6_jason_reseq	-2.511	-0.388
MHCII_jason_reseq	-3.0	-1.006
Isoniazid02	-1.307	-0.741
Rifampicin4	0.303	0.72
Ethambutol3	-0.845	-0.912
Meropenem3	-1.276	-0.072
Vancomycin16	-0.883	0.101
Rv2680_day32	0.018	-0.893
H37Rv_KO_MarP	1.192	-0.416
hypoxia_3wks	-0.694	0.0
hypoxia_6wks	0.416	0.372
glycerol	-1.401	0.471
cholesterol	-0.766	-0.098
AJ	0.301	1.4
Bibs02	0.954	0.608
Bibs02c	-0.629	-0.54
BL6	0.837	0.117
BL6a	0.387	1.195
BXD01	0.703	0.042
BXD010	0.131	1.067
BXD011	1.34	1.169
BXD03	-0.25	0.243
BXD04	0.562	0.382
BXD05	0.499	-0.188
BXD06	0.849	0.73
BXD07	0.96	1.112
BXD08	0.656	0.442
BXD09	1.112	0.434
CAST	0.48	-0.237
CCcont	1.683	0.633
DS01	-1.372	0.075
DS02	0.9	-0.224
DS04	0.304	-0.2
DS0c	0.368	-0.146
GP01	-1.978	-0.594
GP02	-1.667	0.052
GP0c	-2.605	-0.86
NOD	0.068	-0.775
NZO	0.63	1.631
PWK	0.145	0.789
H37Rv_KO_CtpC	3.761	1.305
H37Rv_KO_CtpD	1.266	1.835
H37Rv_KO_Rv1272	1.942	1.819
H37Rv_KO_SugABC	-0.63	1.368
H37Rv_KO_MbtN	-0.289	1.359
Trans05	1.185	1.569
macrophage_unactivated	1.288	0.518
IL1	-0.581	0.985
Rapamycin	0.347	0.15
Tcell	1.58	-0.336
GMCSF	0.333	0.375
IFNab	1.176	-0.076
IFNg	1.539	0.78
IFNg_GMCSF1	-0.962	-0.408
Rv1432_day32	-0.763	0.524
Rv1565c_day32	-0.134	0.82
secA2_input	0.244	-0.204
delta_Rv3594	-0.85	0.058
delta_Rv3717	-1.097	0.273
delta_Rv3811	-0.233	-0.757
delta_Rv0954	1.264	0.704
PonA1	1.221	1.062
EccD1_KO	0.99	0.0
EspI_KO	1.526	0.736
PE35_KO	0.12	0.543
PPE68_KO	0.739	0.512
glycerol2	-1.473	-0.618
lignocerate	-0.48	-0.415
oleate	-1.859	-1.117
phosphatidylcholine	-0.866	-0.618
acetate	-0.048	0.658
glucAc	0.626	0.184
Rv0950ko	0.669	0.684
Rv1096ko	-0.106	1.342
Rv3684ko	0.681	0.829
delta_otsA_trehalose	1.027	-0.672