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 Rv2285/-:

update plot	correlation	link to info on gene
Rv1276c/-	(cc=0.571)	info on Rv1276c/-
Rv1279/-	(cc=0.5662)	info on Rv1279/-
Rv2559c/-	(cc=0.5642)	info on Rv2559c/-
Rv2917/-	(cc=0.5631)	info on Rv2917/-
Rv3038c/-	(cc=0.563)	info on Rv3038c/-
Rv2701c/suhB	(cc=0.5548)	info on Rv2701c/suhB
Rv0263c/-	(cc=0.551)	info on Rv0263c/-
Rv2515c/-	(cc=0.5473)	info on Rv2515c/-
Rv1104/-	(cc=0.5438)	info on Rv1104/-
Rv0894/-	(cc=0.5321)	info on Rv0894/-

Correlation of Rv2285/- with Rv1276c/-

Normalized LFCs for Rv2285/-:
(description and provenance of datasets)

	Rv2285/-	Rv1276c/-
Fe_supp_jason_reseq	-0.933	0.101
low_pH_jason_reseq	0.684	0.308
NO_jason_reseq	0.089	0.331
B6_jason_reseq	1.203	1.875
MHCII_jason_reseq	-0.13	2.243
Isoniazid02	0.528	0.63
Rifampicin4	0.043	1.584
Ethambutol3	0.331	0.392
Meropenem3	1.58	0.519
Vancomycin16	0.085	1.005
Rv2680_day32	-0.21	-1.142
H37Rv_KO_MarP	-0.341	-0.104
hypoxia_3wks	-0.12	0.128
hypoxia_6wks	-0.234	0.436
glycerol	0.152	1.673
cholesterol	0.508	-0.463
AJ	0.303	-1.064
Bibs02	0.419	0.344
Bibs02c	-0.408	-0.376
BL6	-0.632	-2.651
BL6a	-0.426	-1.435
BXD01	-0.915	-1.221
BXD010	-0.453	-1.038
BXD011	-0.45	-1.591
BXD03	-0.5	-0.457
BXD04	-0.681	-2.498
BXD05	0.278	-0.405
BXD06	-0.208	-2.174
BXD07	-0.65	-2.006
BXD08	-0.696	-1.118
BXD09	-0.157	-1.693
CAST	0.334	0.756
CCcont	-1.587	-1.865
DS01	-0.192	-0.133
DS02	0.306	-0.219
DS04	-1.162	-1.459
DS0c	0.325	-0.091
GP01	-0.129	-1.068
GP02	0.579	-1.355
GP0c	-0.17	0.087
NOD	0.4	-1.178
NZO	0.715	-1.046
PWK	0.331	-1.475
H37Rv_KO_CtpC	-0.805	-1.469
H37Rv_KO_CtpD	-0.344	-2.443
H37Rv_KO_Rv1272	-0.521	-2.602
H37Rv_KO_SugABC	-0.234	-2.001
H37Rv_KO_MbtN	-0.782	-1.902
Trans05	-0.579	-2.769
macrophage_unactivated	-0.129	1.61
IL1	0.03	-2.361
Rapamycin	-0.427	-1.795
Tcell	-0.342	-1.496
GMCSF	-1.336	-3.549
IFNab	-0.626	-2.183
IFNg	-0.949	-1.743
IFNg_GMCSF1	0.094	-1.26
Rv1432_day32	0.739	1.707
Rv1565c_day32	-0.248	0.0
secA2_input	0.027	1.121
delta_Rv3594	0.274	-0.193
delta_Rv3717	0.676	1.57
delta_Rv3811	0.877	1.3
delta_Rv0954	0.707	-0.34
PonA1	0.375	-0.145
EccD1_KO	1.437	0.678
EspI_KO	0.779	1.974
PE35_KO	0.723	-0.516
PPE68_KO	0.835	0.0
glycerol2	-0.513	-0.981
lignocerate	-0.653	-1.565
oleate	0.069	-0.404
phosphatidylcholine	-0.202	-0.564
acetate	-0.861	-1.601
glucAc	-0.887	-2.186
Rv0950ko	-0.431	0.856
Rv1096ko	0.751	-1.315
Rv3684ko	0.508	-1.428
delta_otsA_trehalose	0.456	-0.654