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 Rv3862c/whiB6

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

	Rv3685c/cyp137	Rv3862c/whiB6
Fe_supp_jason_reseq	0.698	0.27
low_pH_jason_reseq	0.064	-0.684
NO_jason_reseq	-0.748	-1.972
B6_jason_reseq	-1.116	-0.517
MHCII_jason_reseq	-0.182	-0.251
Isoniazid02	-0.448	0.413
Rifampicin4	-0.501	-0.449
Ethambutol3	-0.095	-0.202
Meropenem3	0.834	-0.734
Vancomycin16	-0.207	0.475
Rv2680_day32	0.114	1.898
H37Rv_KO_MarP	0.016	0.056
hypoxia_3wks	0.052	-0.016
hypoxia_6wks	-0.278	0.192
glycerol	-1.011	1.258
cholesterol	-0.214	0.721
AJ	-0.012	-0.664
Bibs02	-0.193	0.543
Bibs02c	0.108	0.599
BL6	-0.288	0.536
BL6a	0.375	0.479
BXD01	0.119	0.764
BXD010	0.117	0.886
BXD011	0.375	0.576
BXD03	0.784	-0.231
BXD04	-0.237	0.935
BXD05	0.51	1.023
BXD06	0.062	0.67
BXD07	0.412	0.533
BXD08	0.861	0.625
BXD09	0.162	0.533
CAST	-0.34	-0.452
CCcont	0.328	0.604
DS01	0.618	0.814
DS02	0.55	-0.882
DS04	0.763	0.247
DS0c	1.057	-0.228
GP01	1.168	-0.202
GP02	-0.431	-0.347
GP0c	-0.504	0.624
NOD	-0.459	0.384
NZO	-0.308	0.152
PWK	0.111	-0.176
H37Rv_KO_CtpC	-0.24	0.534
H37Rv_KO_CtpD	0.474	1.006
H37Rv_KO_Rv1272	1.181	1.051
H37Rv_KO_SugABC	0.192	0.796
H37Rv_KO_MbtN	-0.115	1.909
Trans05	0.218	1.106
macrophage_unactivated	0.96	0.931
IL1	1.056	2.005
Rapamycin	1.252	1.234
Tcell	-0.818	-1.623
GMCSF	1.302	0.837
IFNab	1.566	3.586
IFNg	1.392	2.705
IFNg_GMCSF1	1.144	2.124
Rv1432_day32	0.37	0.257
Rv1565c_day32	-0.325	-0.655
secA2_input	-0.615	-0.675
delta_Rv3594	0.973	0.491
delta_Rv3717	0.482	1.436
delta_Rv3811	1.108	0.803
delta_Rv0954	0.486	-1.081
PonA1	0.919	-0.926
EccD1_KO	-0.289	-0.391
EspI_KO	0.473	-0.836
PE35_KO	-0.193	-0.753
PPE68_KO	0.016	-0.611
glycerol2	0.789	0.395
lignocerate	0.822	-0.448
oleate	0.873	0.937
phosphatidylcholine	0.724	0.071
acetate	-0.066	-0.941
glucAc	-0.07	-1.946
Rv0950ko	0.262	-1.366
Rv1096ko	-0.597	-0.995
Rv3684ko	1.091	-0.373
delta_otsA_trehalose	-0.887	-1.32