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 Rv3463/-:

update plot	correlation	link to info on gene
Rv0393/-	(cc=0.5505)	info on Rv0393/-
Rv3641c/fic	(cc=0.503)	info on Rv3641c/fic
Rv0747/PE_PGRS10	(cc=0.4958)	info on Rv0747/PE_PGRS10
Rv1116A/-	(cc=0.4903)	info on Rv1116A/-
Rv1041c/-	(cc=0.4785)	info on Rv1041c/-
Rv1646/PE17	(cc=0.4721)	info on Rv1646/PE17
Rv3307/deoD	(cc=0.4683)	info on Rv3307/deoD
Rv2232/ptkA	(cc=0.4566)	info on Rv2232/ptkA
Rv3777/-	(cc=0.4534)	info on Rv3777/-
Rv0775/-	(cc=0.4486)	info on Rv0775/-

Correlation of Rv3463/- with Rv1116A/-

Normalized LFCs for Rv3463/-:
(description and provenance of datasets)

	Rv3463/-	Rv1116A/-
Fe_supp_jason_reseq	-0.474	0.857
low_pH_jason_reseq	-0.557	-0.673
NO_jason_reseq	-0.732	-0.404
B6_jason_reseq	0.192	1.454
MHCII_jason_reseq	-0.018	0.601
Isoniazid02	-0.997	0.052
Rifampicin4	-0.046	0.284
Ethambutol3	0.491	0.276
Meropenem3	0.906	1.617
Vancomycin16	-0.249	0.154
Rv2680_day32	-0.349	0.623
H37Rv_KO_MarP	1.239	0.313
hypoxia_3wks	0.104	-0.156
hypoxia_6wks	-0.48	0.165
glycerol	0.436	0.37
cholesterol	-0.369	0.493
AJ	-0.348	0.6
Bibs02	-0.436	0.714
Bibs02c	0.149	-0.579
BL6	-0.477	0.52
BL6a	-0.297	-0.211
BXD01	-0.246	0.246
BXD010	-0.202	0.079
BXD011	-0.601	-0.303
BXD03	-0.311	0.076
BXD04	0.516	-0.01
BXD05	0.026	0.206
BXD06	-0.296	0.171
BXD07	-0.377	-0.039
BXD08	0.135	-0.258
BXD09	-0.496	-0.206
CAST	0.409	-0.541
CCcont	-0.248	-0.093
DS01	-0.265	0.756
DS02	0.469	0.462
DS04	0.365	-0.03
DS0c	1.037	0.91
GP01	-0.833	0.0
GP02	-0.753	0.163
GP0c	-0.626	0.083
NOD	0.36	0.0
NZO	0.25	-0.082
PWK	0.077	0.243
H37Rv_KO_CtpC	-0.033	-0.075
H37Rv_KO_CtpD	-1.108	0.041
H37Rv_KO_Rv1272	-0.976	0.7
H37Rv_KO_SugABC	0.465	0.162
H37Rv_KO_MbtN	-0.508	0.494
Trans05	-0.629	0.548
macrophage_unactivated	-1.689	-1.152
IL1	-0.887	-1.083
Rapamycin	-1.059	-1.086
Tcell	-0.124	-0.411
GMCSF	0.0	-0.768
IFNab	-1.079	-0.333
IFNg	-0.799	-0.799
IFNg_GMCSF1	-0.729	0.295
Rv1432_day32	-0.438	0.272
Rv1565c_day32	-0.69	-0.444
secA2_input	0.964	0.82
delta_Rv3594	-0.659	-0.407
delta_Rv3717	-0.059	-0.411
delta_Rv3811	-1.136	0.039
delta_Rv0954	-0.682	-0.116
PonA1	-0.815	-0.058
EccD1_KO	0.03	-0.138
EspI_KO	0.148	0.679
PE35_KO	-0.105	0.248
PPE68_KO	0.0	0.47
glycerol2	1.401	1.005
lignocerate	0.426	0.51
oleate	0.024	1.144
phosphatidylcholine	0.819	0.766
acetate	-0.414	-0.465
glucAc	-0.555	-0.348
Rv0950ko	0.639	0.766
Rv1096ko	0.317	-0.054
Rv3684ko	-0.973	-0.544
delta_otsA_trehalose	0.0	-0.138