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 Rv3517/-:

update plot	correlation	link to info on gene
Rv3694c/-	(cc=0.4981)	info on Rv3694c/-
Rv3689/-	(cc=0.4812)	info on Rv3689/-
Rv3796/-	(cc=0.4794)	info on Rv3796/-
Rv2253/-	(cc=0.4682)	info on Rv2253/-
Rv0831c/-	(cc=0.463)	info on Rv0831c/-
Rv3744/nmtR	(cc=0.4522)	info on Rv3744/nmtR
Rv3695/-	(cc=0.4453)	info on Rv3695/-
Rv1585c/-	(cc=0.4422)	info on Rv1585c/-
Rv3142c/-	(cc=0.4388)	info on Rv3142c/-
Rv3378c/-	(cc=0.4266)	info on Rv3378c/-

Correlation of Rv3517/- with Rv3744/nmtR

Normalized LFCs for Rv3517/-:
(description and provenance of datasets)

	Rv3517/-	Rv3744/nmtR
Fe_supp_jason_reseq	0.3	-1.793
low_pH_jason_reseq	-1.491	-0.982
NO_jason_reseq	-0.541	0.134
B6_jason_reseq	-0.856	-1.443
MHCII_jason_reseq	-0.266	-0.96
Isoniazid02	-0.419	0.23
Rifampicin4	0.65	0.111
Ethambutol3	0.514	0.745
Meropenem3	1.004	0.298
Vancomycin16	-0.297	0.162
Rv2680_day32	-0.576	-1.045
H37Rv_KO_MarP	0.016	0.138
hypoxia_3wks	-0.427	0.949
hypoxia_6wks	-0.397	-0.831
glycerol	-0.793	-0.025
cholesterol	0.252	0.079
AJ	1.592	1.198
Bibs02	0.736	-0.703
Bibs02c	0.202	-0.443
BL6	0.556	0.81
BL6a	-0.076	-0.317
BXD01	0.731	0.426
BXD010	0.671	-0.481
BXD011	0.3	-0.149
BXD03	0.891	-0.042
BXD04	0.279	0.022
BXD05	0.234	0.049
BXD06	0.218	-0.377
BXD07	0.084	0.301
BXD08	1.061	0.499
BXD09	0.589	-0.017
CAST	0.14	0.429
CCcont	0.639	-0.186
DS01	0.869	-0.744
DS02	0.354	0.118
DS04	1.117	0.15
DS0c	0.08	0.278
GP01	0.805	0.809
GP02	-0.124	0.245
GP0c	1.021	-0.1
NOD	1.778	0.804
NZO	0.803	0.643
PWK	1.833	1.65
H37Rv_KO_CtpC	1.432	1.471
H37Rv_KO_CtpD	0.683	1.334
H37Rv_KO_Rv1272	1.625	-0.053
H37Rv_KO_SugABC	0.39	1.483
H37Rv_KO_MbtN	-0.153	-0.806
Trans05	1.08	0.485
macrophage_unactivated	0.698	-0.354
IL1	0.036	-1.605
Rapamycin	-0.629	-0.921
Tcell	0.948	-0.661
GMCSF	0.063	-0.734
IFNab	0.245	-1.218
IFNg	-0.265	-1.013
IFNg_GMCSF1	0.327	-0.028
Rv1432_day32	-0.394	-1.276
Rv1565c_day32	-0.357	-0.174
secA2_input	0.332	1.747
delta_Rv3594	-0.408	-0.424
delta_Rv3717	-0.258	-0.245
delta_Rv3811	0.016	0.77
delta_Rv0954	-0.362	-0.074
PonA1	1.154	1.046
EccD1_KO	0.766	-0.375
EspI_KO	-0.439	-0.95
PE35_KO	0.055	-1.342
PPE68_KO	0.358	-2.166
glycerol2	0.611	-0.34
lignocerate	0.746	-0.801
oleate	0.956	0.751
phosphatidylcholine	0.728	-0.34
acetate	0.12	-0.316
glucAc	0.223	-0.992
Rv0950ko	0.036	1.182
Rv1096ko	1.616	0.513
Rv3684ko	1.33	0.069
delta_otsA_trehalose	0.831	1.21