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 Rv3685c/cyp137:

update plot	correlation	link to info on gene
Rv2113/-	(cc=0.5386)	info on Rv2113/-
Rv0159c/PE3	(cc=0.5031)	info on Rv0159c/PE3
Rv1817/-	(cc=0.5029)	info on Rv1817/-
Rv0453/PPE11	(cc=0.4864)	info on Rv0453/PPE11
Rv3815c/-	(cc=0.4704)	info on Rv3815c/-
Rv2339/mmpL9	(cc=0.4519)	info on Rv2339/mmpL9
Rv2590/fadD9	(cc=0.4405)	info on Rv2590/fadD9
Rv3862c/whiB6	(cc=0.4323)	info on Rv3862c/whiB6
Rv0950c/-	(cc=0.4277)	info on Rv0950c/-
Rv2822c/-	(cc=0.4255)	info on Rv2822c/-

Correlation of Rv3685c/cyp137 with Rv3815c/-

Normalized LFCs for Rv3685c/cyp137:
(description and provenance of datasets)

	Rv3685c/cyp137	Rv3815c/-
Fe_supp_jason_reseq	0.698	0.979
low_pH_jason_reseq	0.064	-0.796
NO_jason_reseq	-0.748	-0.126
B6_jason_reseq	-1.116	0.078
MHCII_jason_reseq	-0.182	0.437
Isoniazid02	-0.448	1.352
Rifampicin4	-0.501	-0.631
Ethambutol3	-0.095	1.757
Meropenem3	0.834	0.574
Vancomycin16	-0.207	-1.353
Rv2680_day32	0.114	-2.585
H37Rv_KO_MarP	0.016	0.539
hypoxia_3wks	0.052	-0.303
hypoxia_6wks	-0.278	-0.956
glycerol	-1.011	0.942
cholesterol	-0.214	0.987
AJ	-0.012	0.247
Bibs02	-0.193	-0.274
Bibs02c	0.108	0.488
BL6	-0.288	0.605
BL6a	0.375	0.432
BXD01	0.119	0.552
BXD010	0.117	-0.555
BXD011	0.375	1.267
BXD03	0.784	-0.091
BXD04	-0.237	0.913
BXD05	0.51	-0.439
BXD06	0.062	-0.064
BXD07	0.412	-0.093
BXD08	0.861	0.31
BXD09	0.162	0.161
CAST	-0.34	0.205
CCcont	0.328	0.808
DS01	0.618	0.0
DS02	0.55	-1.134
DS04	0.763	0.364
DS0c	1.057	-0.471
GP01	1.168	0.678
GP02	-0.431	0.633
GP0c	-0.504	0.369
NOD	-0.459	0.386
NZO	-0.308	-0.257
PWK	0.111	0.413
H37Rv_KO_CtpC	-0.24	-0.126
H37Rv_KO_CtpD	0.474	1.339
H37Rv_KO_Rv1272	1.181	1.376
H37Rv_KO_SugABC	0.192	-0.298
H37Rv_KO_MbtN	-0.115	0.907
Trans05	0.218	0.61
macrophage_unactivated	0.96	1.079
IL1	1.056	2.231
Rapamycin	1.252	2.397
Tcell	-0.818	-5.116
GMCSF	1.302	2.883
IFNab	1.566	2.352
IFNg	1.392	2.05
IFNg_GMCSF1	1.144	1.709
Rv1432_day32	0.37	0.15
Rv1565c_day32	-0.325	0.084
secA2_input	-0.615	-0.485
delta_Rv3594	0.973	0.327
delta_Rv3717	0.482	1.309
delta_Rv3811	1.108	1.083
delta_Rv0954	0.486	0.976
PonA1	0.919	0.616
EccD1_KO	-0.289	0.918
EspI_KO	0.473	0.473
PE35_KO	-0.193	-0.403
PPE68_KO	0.016	0.48
glycerol2	0.789	0.893
lignocerate	0.822	0.992
oleate	0.873	0.379
phosphatidylcholine	0.724	0.769
acetate	-0.066	1.43
glucAc	-0.07	1.041
Rv0950ko	0.262	-0.498
Rv1096ko	-0.597	-0.115
Rv3684ko	1.091	0.465
delta_otsA_trehalose	-0.887	-1.184