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 Rv2001/-:

update plot	correlation	link to info on gene
Rv0820/phoT	(cc=0.5868)	info on Rv0820/phoT
Rv0930/pstA1	(cc=0.5824)	info on Rv0930/pstA1
Rv0928/pstS3	(cc=0.5453)	info on Rv0928/pstS3
Rv3050c/-	(cc=0.5401)	info on Rv3050c/-
Rv0929/pstC2	(cc=0.5394)	info on Rv0929/pstC2
Rv3831/-	(cc=0.52)	info on Rv3831/-
Rv1925/fadD31	(cc=0.5168)	info on Rv1925/fadD31
Rv3218/-	(cc=0.5152)	info on Rv3218/-
Rv3210c/-	(cc=0.5088)	info on Rv3210c/-
Rv0924c/mntH	(cc=0.5071)	info on Rv0924c/mntH

Correlation of Rv2001/- with Rv3831/-

Normalized LFCs for Rv2001/-:
(description and provenance of datasets)

	Rv2001/-	Rv3831/-
Fe_supp_jason_reseq	0.054	-0.936
low_pH_jason_reseq	-1.022	-1.268
NO_jason_reseq	0.176	0.507
B6_jason_reseq	0.326	-0.669
MHCII_jason_reseq	0.05	-0.863
Isoniazid02	-0.244	0.086
Rifampicin4	-0.498	-0.073
Ethambutol3	-0.505	0.218
Meropenem3	-0.497	0.089
Vancomycin16	-0.117	0.332
Rv2680_day32	2.509	1.877
H37Rv_KO_MarP	0.182	0.879
hypoxia_3wks	0.0	-0.1
hypoxia_6wks	-0.739	0.061
glycerol	0.941	-0.12
cholesterol	0.532	0.415
AJ	0.318	-0.185
Bibs02	1.423	0.128
Bibs02c	0.511	-0.74
BL6	0.045	0.555
BL6a	1.164	0.349
BXD01	1.396	0.234
BXD010	1.04	1.308
BXD011	1.553	1.212
BXD03	-0.185	0.415
BXD04	1.055	0.627
BXD05	1.059	1.011
BXD06	1.203	0.838
BXD07	1.632	0.472
BXD08	0.506	0.706
BXD09	1.266	0.828
CAST	0.123	0.052
CCcont	0.51	0.32
DS01	0.927	0.506
DS02	-0.082	0.377
DS04	0.104	-0.476
DS0c	1.01	0.512
GP01	0.4	0.651
GP02	1.292	1.442
GP0c	1.493	1.265
NOD	1.175	0.425
NZO	-0.273	0.925
PWK	0.237	-0.165
H37Rv_KO_CtpC	1.192	-0.071
H37Rv_KO_CtpD	1.752	1.321
H37Rv_KO_Rv1272	1.097	0.843
H37Rv_KO_SugABC	0.813	0.417
H37Rv_KO_MbtN	-0.495	-0.891
Trans05	0.375	0.61
macrophage_unactivated	-0.11	-0.022
IL1	-0.73	-0.101
Rapamycin	0.209	0.298
Tcell	0.635	0.049
GMCSF	0.09	0.372
IFNab	-0.051	-0.045
IFNg	1.016	0.358
IFNg_GMCSF1	-0.581	0.226
Rv1432_day32	0.611	0.151
Rv1565c_day32	-0.799	0.886
secA2_input	0.266	0.595
delta_Rv3594	0.551	-0.234
delta_Rv3717	0.561	-0.369
delta_Rv3811	0.016	0.037
delta_Rv0954	-1.084	0.039
PonA1	-0.332	0.641
EccD1_KO	-0.855	-0.138
EspI_KO	-1.041	0.197
PE35_KO	-0.05	0.172
PPE68_KO	-0.054	-0.061
glycerol2	-0.706	0.101
lignocerate	0.022	0.026
oleate	-0.027	0.03
phosphatidylcholine	0.052	0.196
acetate	0.062	-0.482
glucAc	-0.079	-0.166
Rv0950ko	0.476	0.528
Rv1096ko	-0.597	0.314
Rv3684ko	0.406	-0.039
delta_otsA_trehalose	0.623	0.068