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 Rv2113/-

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

	Rv3685c/cyp137	Rv2113/-
Fe_supp_jason_reseq	0.698	0.922
low_pH_jason_reseq	0.064	-1.379
NO_jason_reseq	-0.748	-0.559
B6_jason_reseq	-1.116	-1.249
MHCII_jason_reseq	-0.182	-0.531
Isoniazid02	-0.448	-1.043
Rifampicin4	-0.501	0.406
Ethambutol3	-0.095	0.657
Meropenem3	0.834	-0.462
Vancomycin16	-0.207	-0.231
Rv2680_day32	0.114	-0.825
H37Rv_KO_MarP	0.016	0.159
hypoxia_3wks	0.052	-0.012
hypoxia_6wks	-0.278	-0.568
glycerol	-1.011	0.237
cholesterol	-0.214	-0.405
AJ	-0.012	0.356
Bibs02	-0.193	-0.372
Bibs02c	0.108	-0.209
BL6	-0.288	0.418
BL6a	0.375	0.169
BXD01	0.119	-0.106
BXD010	0.117	-0.113
BXD011	0.375	0.753
BXD03	0.784	0.123
BXD04	-0.237	-0.166
BXD05	0.51	0.301
BXD06	0.062	0.224
BXD07	0.412	0.171
BXD08	0.861	0.265
BXD09	0.162	0.103
CAST	-0.34	-0.828
CCcont	0.328	0.169
DS01	0.618	-0.335
DS02	0.55	0.098
DS04	0.763	-0.218
DS0c	1.057	0.11
GP01	1.168	0.072
GP02	-0.431	-0.087
GP0c	-0.504	0.142
NOD	-0.459	-0.404
NZO	-0.308	-0.604
PWK	0.111	-0.409
H37Rv_KO_CtpC	-0.24	0.148
H37Rv_KO_CtpD	0.474	0.72
H37Rv_KO_Rv1272	1.181	0.551
H37Rv_KO_SugABC	0.192	1.132
H37Rv_KO_MbtN	-0.115	0.42
Trans05	0.218	0.939
macrophage_unactivated	0.96	1.143
IL1	1.056	2.886
Rapamycin	1.252	3.167
Tcell	-0.818	-6.0
GMCSF	1.302	2.756
IFNab	1.566	2.663
IFNg	1.392	2.905
IFNg_GMCSF1	1.144	2.963
Rv1432_day32	0.37	0.322
Rv1565c_day32	-0.325	1.531
secA2_input	-0.615	0.128
delta_Rv3594	0.973	-0.337
delta_Rv3717	0.482	-0.154
delta_Rv3811	1.108	-0.312
delta_Rv0954	0.486	0.181
PonA1	0.919	-0.268
EccD1_KO	-0.289	0.148
EspI_KO	0.473	0.222
PE35_KO	-0.193	-0.286
PPE68_KO	0.016	-0.147
glycerol2	0.789	0.894
lignocerate	0.822	0.616
oleate	0.873	1.331
phosphatidylcholine	0.724	0.999
acetate	-0.066	0.342
glucAc	-0.07	-0.082
Rv0950ko	0.262	0.25
Rv1096ko	-0.597	-0.13
Rv3684ko	1.091	-0.233
delta_otsA_trehalose	-0.887	0.537