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 Rv3776/-:

update plot	correlation	link to info on gene
Rv2414c/-	(cc=0.4834)	info on Rv2414c/-
Rv3665c/dppB	(cc=0.4675)	info on Rv3665c/dppB
Rv1177/fdxC	(cc=0.4484)	info on Rv1177/fdxC
Rv2693c/-	(cc=0.4458)	info on Rv2693c/-
Rv2149c/yfiH	(cc=0.4366)	info on Rv2149c/yfiH
Rv2265/-	(cc=0.4215)	info on Rv2265/-
Rv0836c/-	(cc=0.4204)	info on Rv0836c/-
Rv3440c/-	(cc=0.414)	info on Rv3440c/-
Rv1944c/-	(cc=0.4056)	info on Rv1944c/-
Rv0209/-	(cc=0.4034)	info on Rv0209/-

Correlation of Rv3776/- with Rv0209/-

Normalized LFCs for Rv3776/-:
(description and provenance of datasets)

	Rv3776/-	Rv0209/-
Fe_supp_jason_reseq	-0.406	-0.426
low_pH_jason_reseq	1.193	-0.428
NO_jason_reseq	0.034	-0.528
B6_jason_reseq	-0.219	-0.729
MHCII_jason_reseq	-0.207	-0.108
Isoniazid02	0.655	0.569
Rifampicin4	-0.255	0.528
Ethambutol3	1.284	0.415
Meropenem3	-0.35	0.019
Vancomycin16	-0.186	0.085
Rv2680_day32	0.307	0.802
H37Rv_KO_MarP	0.316	0.697
hypoxia_3wks	-0.271	0.478
hypoxia_6wks	-0.468	-0.71
glycerol	0.12	0.984
cholesterol	-0.169	0.214
AJ	0.282	-0.877
Bibs02	0.642	0.372
Bibs02c	0.67	-1.381
BL6	0.355	0.621
BL6a	0.263	-0.535
BXD01	0.235	-0.108
BXD010	-0.444	0.16
BXD011	-0.327	-0.281
BXD03	-0.009	0.746
BXD04	0.503	0.331
BXD05	-0.042	0.413
BXD06	-0.213	0.0
BXD07	-0.182	0.327
BXD08	0.198	0.341
BXD09	-0.339	0.301
CAST	0.404	0.494
CCcont	0.173	0.058
DS01	0.438	0.031
DS02	0.912	0.057
DS04	0.485	0.242
DS0c	0.625	0.167
GP01	0.849	1.634
GP02	1.226	1.078
GP0c	0.624	1.256
NOD	0.867	0.306
NZO	0.221	-1.22
PWK	0.139	-0.669
H37Rv_KO_CtpC	0.351	0.105
H37Rv_KO_CtpD	0.406	-0.806
H37Rv_KO_Rv1272	-0.244	0.527
H37Rv_KO_SugABC	0.436	-0.474
H37Rv_KO_MbtN	1.29	0.276
Trans05	0.187	0.309
macrophage_unactivated	-0.139	-0.628
IL1	0.273	0.946
Rapamycin	0.331	0.703
Tcell	0.14	-0.424
GMCSF	0.024	0.57
IFNab	0.051	1.037
IFNg	-0.069	1.521
IFNg_GMCSF1	0.239	-0.251
Rv1432_day32	0.716	1.707
Rv1565c_day32	0.46	0.824
secA2_input	0.668	0.322
delta_Rv3594	-0.541	-1.325
delta_Rv3717	-0.22	-0.49
delta_Rv3811	-0.541	-0.22
delta_Rv0954	-0.052	0.026
PonA1	-0.172	0.247
EccD1_KO	-0.247	-0.414
EspI_KO	-0.764	-1.486
PE35_KO	-0.26	-0.677
PPE68_KO	-0.397	-0.848
glycerol2	0.182	0.887
lignocerate	0.274	1.087
oleate	0.133	1.151
phosphatidylcholine	0.22	0.662
acetate	0.126	0.923
glucAc	0.059	0.694
Rv0950ko	0.419	0.139
Rv1096ko	0.127	0.778
Rv3684ko	0.219	0.151
delta_otsA_trehalose	-1.085	-2.114