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 Rv0374c/-:

update plot	correlation	link to info on gene
Rv2237/-	(cc=0.5247)	info on Rv2237/-
Rv2813/-	(cc=0.4879)	info on Rv2813/-
Rv2281/pitB	(cc=0.468)	info on Rv2281/pitB
Rv1038c/esxJ	(cc=0.4436)	info on Rv1038c/esxJ
Rv1190/-	(cc=0.4423)	info on Rv1190/-
Rv2008c/-	(cc=0.437)	info on Rv2008c/-
Rv2607/pdxH	(cc=0.4263)	info on Rv2607/pdxH
Rv3516/echA19	(cc=0.4229)	info on Rv3516/echA19
Rv1489A/-	(cc=0.4228)	info on Rv1489A/-
Rv3173c/-	(cc=0.421)	info on Rv3173c/-

Correlation of Rv0374c/- with Rv2237/-

Normalized LFCs for Rv0374c/-:
(description and provenance of datasets)

	Rv0374c/-	Rv2237/-
Fe_supp_jason_reseq	1.504	0.23
low_pH_jason_reseq	-0.94	-0.676
NO_jason_reseq	0.349	-0.302
B6_jason_reseq	0.828	-0.548
MHCII_jason_reseq	-1.338	0.053
Isoniazid02	-1.168	0.397
Rifampicin4	-0.509	-0.674
Ethambutol3	-0.904	-0.32
Meropenem3	-1.198	-0.231
Vancomycin16	-0.191	-0.064
Rv2680_day32	0.101	0.594
H37Rv_KO_MarP	0.404	0.254
hypoxia_3wks	-0.514	-0.762
hypoxia_6wks	-0.781	-0.814
glycerol	-0.069	0.12
cholesterol	-1.001	0.447
AJ	-0.62	0.235
Bibs02	-1.038	0.013
Bibs02c	-1.587	-0.52
BL6	0.516	0.847
BL6a	0.066	0.201
BXD01	0.165	-0.443
BXD010	1.164	0.241
BXD011	0.637	0.53
BXD03	-0.046	-0.725
BXD04	-0.702	-0.369
BXD05	0.359	0.165
BXD06	-0.758	0.284
BXD07	0.217	-0.399
BXD08	0.283	-0.084
BXD09	1.132	0.228
CAST	0.787	-0.464
CCcont	0.807	1.023
DS01	-0.252	0.399
DS02	0.848	1.096
DS04	-0.606	0.45
DS0c	-1.362	0.129
GP01	0.81	0.95
GP02	-0.691	-0.93
GP0c	1.507	0.356
NOD	3.868	-0.371
NZO	-1.657	0.35
PWK	-1.003	-0.625
H37Rv_KO_CtpC	-1.759	-0.013
H37Rv_KO_CtpD	-1.052	-0.315
H37Rv_KO_Rv1272	-0.886	-0.297
H37Rv_KO_SugABC	-1.171	0.422
H37Rv_KO_MbtN	-0.712	0.656
Trans05	-0.091	0.02
macrophage_unactivated	-1.66	0.076
IL1	0.0	0.24
Rapamycin	-0.807	-0.11
Tcell	-0.704	0.339
GMCSF	0.304	-0.261
IFNab	-0.795	0.0
IFNg	1.267	0.644
IFNg_GMCSF1	-1.474	0.628
Rv1432_day32	0.866	-0.01
Rv1565c_day32	-2.434	-0.479
secA2_input	2.692	0.252
delta_Rv3594	-0.101	1.153
delta_Rv3717	1.155	1.364
delta_Rv3811	0.226	0.772
delta_Rv0954	-1.333	0.16
PonA1	-0.238	0.84
EccD1_KO	2.105	0.53
EspI_KO	1.748	0.91
PE35_KO	1.085	0.858
PPE68_KO	0.262	0.733
glycerol2	1.833	1.88
lignocerate	2.327	2.527
oleate	-0.981	-1.276
phosphatidylcholine	1.871	2.426
acetate	2.031	2.72
glucAc	2.415	2.503
Rv0950ko	-0.181	0.0
Rv1096ko	1.161	-0.078
Rv3684ko	-1.457	-0.819
delta_otsA_trehalose	-2.503	-0.569