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 Rv3665c/dppB:

update plot	correlation	link to info on gene
Rv3776/-	(cc=0.4675)	info on Rv3776/-
Rv1944c/-	(cc=0.4409)	info on Rv1944c/-
Rv3813c/-	(cc=0.4353)	info on Rv3813c/-
Rv2665/-	(cc=0.4068)	info on Rv2665/-
Rv2804c/-	(cc=0.4004)	info on Rv2804c/-
Rv1845c/blaR	(cc=0.397)	info on Rv1845c/blaR
Rv3481c/-	(cc=0.3932)	info on Rv3481c/-
Rv1100/-	(cc=0.3866)	info on Rv1100/-
Rv2206/-	(cc=0.382)	info on Rv2206/-
Rv1020/mfd	(cc=0.3785)	info on Rv1020/mfd

Correlation of Rv3665c/dppB with Rv1020/mfd

Normalized LFCs for Rv3665c/dppB:
(description and provenance of datasets)

	Rv3665c/dppB	Rv1020/mfd
Fe_supp_jason_reseq	-0.365	-0.436
low_pH_jason_reseq	2.515	-0.097
NO_jason_reseq	-1.982	-0.221
B6_jason_reseq	-2.162	-0.783
MHCII_jason_reseq	-1.4	-1.525
Isoniazid02	-0.506	0.124
Rifampicin4	0.165	-0.079
Ethambutol3	1.667	0.984
Meropenem3	-0.689	0.317
Vancomycin16	-0.111	0.615
Rv2680_day32	0.573	-0.635
H37Rv_KO_MarP	-0.272	0.128
hypoxia_3wks	0.327	-1.416
hypoxia_6wks	-0.478	-1.305
glycerol	0.654	0.794
cholesterol	0.854	0.514
AJ	0.751	-0.188
Bibs02	1.142	0.401
Bibs02c	0.474	0.243
BL6	0.906	1.214
BL6a	0.062	0.639
BXD01	0.0	0.377
BXD010	0.8	0.247
BXD011	0.078	0.805
BXD03	-0.135	0.716
BXD04	-0.524	0.613
BXD05	-0.636	0.182
BXD06	0.233	0.967
BXD07	0.279	0.341
BXD08	-0.442	1.15
BXD09	0.488	0.418
CAST	1.185	0.486
CCcont	0.585	1.37
DS01	0.975	-0.248
DS02	0.321	-0.454
DS04	1.744	1.248
DS0c	1.199	-0.201
GP01	0.699	0.878
GP02	-0.175	0.976
GP0c	0.834	0.689
NOD	0.205	-0.659
NZO	-0.663	-0.527
PWK	0.0	-0.067
H37Rv_KO_CtpC	1.949	1.15
H37Rv_KO_CtpD	-0.316	0.232
H37Rv_KO_Rv1272	-1.067	0.177
H37Rv_KO_SugABC	1.302	0.583
H37Rv_KO_MbtN	-0.715	0.263
Trans05	-1.5	0.367
macrophage_unactivated	-0.593	-0.47
IL1	-0.439	0.219
Rapamycin	-1.099	0.252
Tcell	0.332	0.029
GMCSF	-0.391	-0.42
IFNab	0.502	0.46
IFNg	-0.502	-0.289
IFNg_GMCSF1	-1.266	0.173
Rv1432_day32	0.0	-0.545
Rv1565c_day32	0.646	-0.123
secA2_input	-0.167	0.776
delta_Rv3594	-1.071	-0.431
delta_Rv3717	-1.33	-0.184
delta_Rv3811	-0.674	-0.543
delta_Rv0954	-0.111	-0.058
PonA1	-0.316	0.525
EccD1_KO	-1.168	0.145
EspI_KO	0.493	0.479
PE35_KO	-0.236	0.053
PPE68_KO	-0.928	0.195
glycerol2	0.261	-0.069
lignocerate	0.06	0.212
oleate	-0.345	-0.242
phosphatidylcholine	0.492	-0.153
acetate	-0.216	0.57
glucAc	-0.554	0.361
Rv0950ko	-0.178	0.678
Rv1096ko	0.172	0.742
Rv3684ko	-0.498	0.593
delta_otsA_trehalose	-2.907	-0.604