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 Rv3218/-

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

	Rv2001/-	Rv3218/-
Fe_supp_jason_reseq	0.054	0.069
low_pH_jason_reseq	-1.022	0.626
NO_jason_reseq	0.176	-0.039
B6_jason_reseq	0.326	0.103
MHCII_jason_reseq	0.05	-0.977
Isoniazid02	-0.244	-0.997
Rifampicin4	-0.498	-0.479
Ethambutol3	-0.505	-0.966
Meropenem3	-0.497	-0.543
Vancomycin16	-0.117	-1.167
Rv2680_day32	2.509	0.234
H37Rv_KO_MarP	0.182	0.319
hypoxia_3wks	0.0	0.502
hypoxia_6wks	-0.739	0.833
glycerol	0.941	-0.357
cholesterol	0.532	0.85
AJ	0.318	-0.338
Bibs02	1.423	0.211
Bibs02c	0.511	0.317
BL6	0.045	1.984
BL6a	1.164	1.934
BXD01	1.396	2.36
BXD010	1.04	2.075
BXD011	1.553	2.479
BXD03	-0.185	1.262
BXD04	1.055	2.489
BXD05	1.059	2.15
BXD06	1.203	2.326
BXD07	1.632	2.605
BXD08	0.506	1.872
BXD09	1.266	2.198
CAST	0.123	-0.299
CCcont	0.51	0.557
DS01	0.927	-0.2
DS02	-0.082	0.225
DS04	0.104	0.51
DS0c	1.01	0.303
GP01	0.4	1.142
GP02	1.292	1.904
GP0c	1.493	1.108
NOD	1.175	-0.586
NZO	-0.273	1.334
PWK	0.237	1.225
H37Rv_KO_CtpC	1.192	0.148
H37Rv_KO_CtpD	1.752	1.334
H37Rv_KO_Rv1272	1.097	1.52
H37Rv_KO_SugABC	0.813	1.485
H37Rv_KO_MbtN	-0.495	2.303
Trans05	0.375	1.743
macrophage_unactivated	-0.11	-0.628
IL1	-0.73	0.561
Rapamycin	0.209	0.822
Tcell	0.635	0.075
GMCSF	0.09	0.906
IFNab	-0.051	0.045
IFNg	1.016	0.43
IFNg_GMCSF1	-0.581	-0.487
Rv1432_day32	0.611	0.963
Rv1565c_day32	-0.799	-0.682
secA2_input	0.266	0.848
delta_Rv3594	0.551	-0.846
delta_Rv3717	0.561	0.467
delta_Rv3811	0.016	-0.464
delta_Rv0954	-1.084	-0.783
PonA1	-0.332	-0.658
EccD1_KO	-0.855	-0.516
EspI_KO	-1.041	-1.144
PE35_KO	-0.05	-0.487
PPE68_KO	-0.054	-1.245
glycerol2	-0.706	-0.859
lignocerate	0.022	-1.679
oleate	-0.027	-1.16
phosphatidylcholine	0.052	-1.931
acetate	0.062	-0.6
glucAc	-0.079	-0.508
Rv0950ko	0.476	0.286
Rv1096ko	-0.597	0.0
Rv3684ko	0.406	0.743
delta_otsA_trehalose	0.623	2.083