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 Rv3665c/dppB

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

	Rv3776/-	Rv3665c/dppB
Fe_supp_jason_reseq	-0.406	-0.365
low_pH_jason_reseq	1.193	2.515
NO_jason_reseq	0.034	-1.982
B6_jason_reseq	-0.219	-2.162
MHCII_jason_reseq	-0.207	-1.4
Isoniazid02	0.655	-0.506
Rifampicin4	-0.255	0.165
Ethambutol3	1.284	1.667
Meropenem3	-0.35	-0.689
Vancomycin16	-0.186	-0.111
Rv2680_day32	0.307	0.573
H37Rv_KO_MarP	0.316	-0.272
hypoxia_3wks	-0.271	0.327
hypoxia_6wks	-0.468	-0.478
glycerol	0.12	0.654
cholesterol	-0.169	0.854
AJ	0.282	0.751
Bibs02	0.642	1.142
Bibs02c	0.67	0.474
BL6	0.355	0.906
BL6a	0.263	0.062
BXD01	0.235	0.0
BXD010	-0.444	0.8
BXD011	-0.327	0.078
BXD03	-0.009	-0.135
BXD04	0.503	-0.524
BXD05	-0.042	-0.636
BXD06	-0.213	0.233
BXD07	-0.182	0.279
BXD08	0.198	-0.442
BXD09	-0.339	0.488
CAST	0.404	1.185
CCcont	0.173	0.585
DS01	0.438	0.975
DS02	0.912	0.321
DS04	0.485	1.744
DS0c	0.625	1.199
GP01	0.849	0.699
GP02	1.226	-0.175
GP0c	0.624	0.834
NOD	0.867	0.205
NZO	0.221	-0.663
PWK	0.139	0.0
H37Rv_KO_CtpC	0.351	1.949
H37Rv_KO_CtpD	0.406	-0.316
H37Rv_KO_Rv1272	-0.244	-1.067
H37Rv_KO_SugABC	0.436	1.302
H37Rv_KO_MbtN	1.29	-0.715
Trans05	0.187	-1.5
macrophage_unactivated	-0.139	-0.593
IL1	0.273	-0.439
Rapamycin	0.331	-1.099
Tcell	0.14	0.332
GMCSF	0.024	-0.391
IFNab	0.051	0.502
IFNg	-0.069	-0.502
IFNg_GMCSF1	0.239	-1.266
Rv1432_day32	0.716	0.0
Rv1565c_day32	0.46	0.646
secA2_input	0.668	-0.167
delta_Rv3594	-0.541	-1.071
delta_Rv3717	-0.22	-1.33
delta_Rv3811	-0.541	-0.674
delta_Rv0954	-0.052	-0.111
PonA1	-0.172	-0.316
EccD1_KO	-0.247	-1.168
EspI_KO	-0.764	0.493
PE35_KO	-0.26	-0.236
PPE68_KO	-0.397	-0.928
glycerol2	0.182	0.261
lignocerate	0.274	0.06
oleate	0.133	-0.345
phosphatidylcholine	0.22	0.492
acetate	0.126	-0.216
glucAc	0.059	-0.554
Rv0950ko	0.419	-0.178
Rv1096ko	0.127	0.172
Rv3684ko	0.219	-0.498
delta_otsA_trehalose	-1.085	-2.907