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 Rv2590/fadD9

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

	Rv3685c/cyp137	Rv2590/fadD9
Fe_supp_jason_reseq	0.698	-0.251
low_pH_jason_reseq	0.064	-1.092
NO_jason_reseq	-0.748	-0.344
B6_jason_reseq	-1.116	-0.253
MHCII_jason_reseq	-0.182	-0.336
Isoniazid02	-0.448	0.586
Rifampicin4	-0.501	0.217
Ethambutol3	-0.095	0.643
Meropenem3	0.834	0.516
Vancomycin16	-0.207	0.013
Rv2680_day32	0.114	0.1
H37Rv_KO_MarP	0.016	0.096
hypoxia_3wks	0.052	0.263
hypoxia_6wks	-0.278	0.228
glycerol	-1.011	0.034
cholesterol	-0.214	0.205
AJ	-0.012	0.151
Bibs02	-0.193	0.007
Bibs02c	0.108	-0.168
BL6	-0.288	-0.06
BL6a	0.375	-0.089
BXD01	0.119	0.076
BXD010	0.117	0.181
BXD011	0.375	0.198
BXD03	0.784	0.084
BXD04	-0.237	-0.004
BXD05	0.51	-0.069
BXD06	0.062	0.048
BXD07	0.412	0.335
BXD08	0.861	-0.078
BXD09	0.162	0.211
CAST	-0.34	-0.063
CCcont	0.328	-0.547
DS01	0.618	0.048
DS02	0.55	0.058
DS04	0.763	0.101
DS0c	1.057	0.182
GP01	1.168	0.262
GP02	-0.431	0.212
GP0c	-0.504	-0.081
NOD	-0.459	-0.023
NZO	-0.308	0.299
PWK	0.111	0.065
H37Rv_KO_CtpC	-0.24	-0.045
H37Rv_KO_CtpD	0.474	0.414
H37Rv_KO_Rv1272	1.181	0.28
H37Rv_KO_SugABC	0.192	0.571
H37Rv_KO_MbtN	-0.115	0.293
Trans05	0.218	0.185
macrophage_unactivated	0.96	0.42
IL1	1.056	0.653
Rapamycin	1.252	0.663
Tcell	-0.818	-0.075
GMCSF	1.302	0.462
IFNab	1.566	0.565
IFNg	1.392	0.265
IFNg_GMCSF1	1.144	0.145
Rv1432_day32	0.37	0.389
Rv1565c_day32	-0.325	-0.34
secA2_input	-0.615	0.063
delta_Rv3594	0.973	0.35
delta_Rv3717	0.482	0.266
delta_Rv3811	1.108	-0.065
delta_Rv0954	0.486	0.096
PonA1	0.919	0.328
EccD1_KO	-0.289	0.263
EspI_KO	0.473	0.759
PE35_KO	-0.193	-0.096
PPE68_KO	0.016	-0.019
glycerol2	0.789	0.639
lignocerate	0.822	0.566
oleate	0.873	0.929
phosphatidylcholine	0.724	0.831
acetate	-0.066	-0.165
glucAc	-0.07	-0.27
Rv0950ko	0.262	0.329
Rv1096ko	-0.597	0.428
Rv3684ko	1.091	0.396
delta_otsA_trehalose	-0.887	-0.627