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 Rv0631c/recC:

update plot	correlation	link to info on gene
Rv0630c/recB	(cc=0.6291)	info on Rv0630c/recB
Rv0039c/-	(cc=0.5919)	info on Rv0039c/-
Rv0377/-	(cc=0.5309)	info on Rv0377/-
Rv0435c/-	(cc=0.5281)	info on Rv0435c/-
Rv0673/echA4	(cc=0.523)	info on Rv0673/echA4
Rv0203/-	(cc=0.5191)	info on Rv0203/-
Rv3655c/-	(cc=0.5107)	info on Rv3655c/-
Rv0633c/-	(cc=0.5096)	info on Rv0633c/-
Rv0372c/-	(cc=0.4799)	info on Rv0372c/-
Rv0650/-	(cc=0.4722)	info on Rv0650/-

Correlation of Rv0631c/recC with Rv0650/-

Normalized LFCs for Rv0631c/recC:
(description and provenance of datasets)

	Rv0631c/recC	Rv0650/-
Fe_supp_jason_reseq	-0.393	-1.301
low_pH_jason_reseq	-0.147	-0.748
NO_jason_reseq	-0.743	-0.772
B6_jason_reseq	-1.158	-0.437
MHCII_jason_reseq	-0.688	0.252
Isoniazid02	0.153	0.639
Rifampicin4	0.42	1.481
Ethambutol3	0.586	1.792
Meropenem3	0.506	0.304
Vancomycin16	0.475	0.735
Rv2680_day32	-0.086	0.326
H37Rv_KO_MarP	0.186	0.446
hypoxia_3wks	-0.702	-0.235
hypoxia_6wks	0.238	-1.503
glycerol	0.66	2.342
cholesterol	-0.079	1.387
AJ	0.37	1.168
Bibs02	1.066	0.503
Bibs02c	0.684	1.44
BL6	-0.381	0.63
BL6a	-0.08	0.684
BXD01	-0.828	-0.164
BXD010	-1.21	0.486
BXD011	-0.482	-0.383
BXD03	-0.275	-0.73
BXD04	-0.54	-0.692
BXD05	-0.535	-1.163
BXD06	-0.557	-0.37
BXD07	-0.985	-0.042
BXD08	-0.722	0.366
BXD09	-1.036	-0.235
CAST	0.34	0.402
CCcont	-0.51	0.913
DS01	0.606	1.738
DS02	0.057	1.47
DS04	1.405	-0.422
DS0c	-0.148	1.466
GP01	-0.472	0.919
GP02	-1.504	0.057
GP0c	-1.145	0.669
NOD	0.029	0.805
NZO	0.295	0.308
PWK	0.222	0.627
H37Rv_KO_CtpC	-0.358	-0.752
H37Rv_KO_CtpD	-0.105	0.661
H37Rv_KO_Rv1272	-0.287	-0.095
H37Rv_KO_SugABC	0.135	0.316
H37Rv_KO_MbtN	-1.008	-2.29
Trans05	-0.895	0.298
macrophage_unactivated	0.761	0.574
IL1	0.3	2.058
Rapamycin	0.939	0.672
Tcell	0.0	-0.368
GMCSF	1.027	0.322
IFNab	0.157	0.846
IFNg	-0.142	0.668
IFNg_GMCSF1	1.222	0.927
Rv1432_day32	-0.209	0.692
Rv1565c_day32	0.253	-0.415
secA2_input	0.348	1.669
delta_Rv3594	0.453	-0.463
delta_Rv3717	0.112	0.515
delta_Rv3811	0.349	-0.076
delta_Rv0954	0.023	1.26
PonA1	-0.864	0.375
EccD1_KO	0.053	1.151
EspI_KO	0.519	0.325
PE35_KO	-0.295	-0.814
PPE68_KO	-0.266	-0.566
glycerol2	-1.609	0.137
lignocerate	-0.941	0.788
oleate	-1.012	-0.544
phosphatidylcholine	-0.959	0.416
acetate	-1.092	-0.115
glucAc	-0.768	0.453
Rv0950ko	0.259	1.493
Rv1096ko	1.785	3.088
Rv3684ko	1.038	3.76
delta_otsA_trehalose	-0.107	-0.197