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 Rv2265/-

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

	Rv3776/-	Rv2265/-
Fe_supp_jason_reseq	-0.406	-0.057
low_pH_jason_reseq	1.193	-0.92
NO_jason_reseq	0.034	-0.312
B6_jason_reseq	-0.219	-0.36
MHCII_jason_reseq	-0.207	0.698
Isoniazid02	0.655	1.087
Rifampicin4	-0.255	0.108
Ethambutol3	1.284	1.246
Meropenem3	-0.35	0.083
Vancomycin16	-0.186	0.133
Rv2680_day32	0.307	-0.079
H37Rv_KO_MarP	0.316	1.009
hypoxia_3wks	-0.271	-1.12
hypoxia_6wks	-0.468	-0.967
glycerol	0.12	0.276
cholesterol	-0.169	0.398
AJ	0.282	0.148
Bibs02	0.642	1.082
Bibs02c	0.67	1.29
BL6	0.355	0.405
BL6a	0.263	0.418
BXD01	0.235	-0.615
BXD010	-0.444	0.315
BXD011	-0.327	-0.989
BXD03	-0.009	0.068
BXD04	0.503	-0.028
BXD05	-0.042	0.457
BXD06	-0.213	-0.471
BXD07	-0.182	-0.062
BXD08	0.198	-0.34
BXD09	-0.339	-0.799
CAST	0.404	-0.085
CCcont	0.173	-0.261
DS01	0.438	0.352
DS02	0.912	-0.049
DS04	0.485	0.7
DS0c	0.625	0.24
GP01	0.849	0.978
GP02	1.226	0.309
GP0c	0.624	0.591
NOD	0.867	-0.353
NZO	0.221	0.841
PWK	0.139	0.529
H37Rv_KO_CtpC	0.351	-0.012
H37Rv_KO_CtpD	0.406	0.098
H37Rv_KO_Rv1272	-0.244	-0.296
H37Rv_KO_SugABC	0.436	0.509
H37Rv_KO_MbtN	1.29	0.242
Trans05	0.187	-0.029
macrophage_unactivated	-0.139	-0.445
IL1	0.273	0.033
Rapamycin	0.331	-0.433
Tcell	0.14	-0.036
GMCSF	0.024	-0.306
IFNab	0.051	-0.314
IFNg	-0.069	-0.345
IFNg_GMCSF1	0.239	-0.107
Rv1432_day32	0.716	-0.18
Rv1565c_day32	0.46	0.644
secA2_input	0.668	0.338
delta_Rv3594	-0.541	-0.255
delta_Rv3717	-0.22	0.537
delta_Rv3811	-0.541	-0.149
delta_Rv0954	-0.052	0.302
PonA1	-0.172	0.028
EccD1_KO	-0.247	-1.075
EspI_KO	-0.764	-0.288
PE35_KO	-0.26	-0.175
PPE68_KO	-0.397	-0.563
glycerol2	0.182	0.249
lignocerate	0.274	0.703
oleate	0.133	0.367
phosphatidylcholine	0.22	0.279
acetate	0.126	0.527
glucAc	0.059	0.723
Rv0950ko	0.419	0.44
Rv1096ko	0.127	0.13
Rv3684ko	0.219	0.449
delta_otsA_trehalose	-1.085	-0.34