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 Rv0924c/mntH

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

	Rv2001/-	Rv0924c/mntH
Fe_supp_jason_reseq	0.054	1.692
low_pH_jason_reseq	-1.022	1.233
NO_jason_reseq	0.176	1.436
B6_jason_reseq	0.326	2.841
MHCII_jason_reseq	0.05	2.374
Isoniazid02	-0.244	-1.042
Rifampicin4	-0.498	0.244
Ethambutol3	-0.505	-0.28
Meropenem3	-0.497	0.641
Vancomycin16	-0.117	0.122
Rv2680_day32	2.509	1.386
H37Rv_KO_MarP	0.182	-1.122
hypoxia_3wks	0.0	-0.283
hypoxia_6wks	-0.739	1.217
glycerol	0.941	2.576
cholesterol	0.532	3.672
AJ	0.318	0.923
Bibs02	1.423	1.903
Bibs02c	0.511	2.178
BL6	0.045	1.934
BL6a	1.164	2.894
BXD01	1.396	3.309
BXD010	1.04	2.855
BXD011	1.553	2.877
BXD03	-0.185	2.406
BXD04	1.055	1.451
BXD05	1.059	2.001
BXD06	1.203	3.414
BXD07	1.632	3.667
BXD08	0.506	3.339
BXD09	1.266	2.832
CAST	0.123	0.224
CCcont	0.51	1.023
DS01	0.927	1.619
DS02	-0.082	1.342
DS04	0.104	2.561
DS0c	1.01	1.458
GP01	0.4	3.433
GP02	1.292	3.155
GP0c	1.493	4.026
NOD	1.175	1.256
NZO	-0.273	2.373
PWK	0.237	-0.156
H37Rv_KO_CtpC	1.192	1.597
H37Rv_KO_CtpD	1.752	0.289
H37Rv_KO_Rv1272	1.097	3.042
H37Rv_KO_SugABC	0.813	2.396
H37Rv_KO_MbtN	-0.495	3.313
Trans05	0.375	3.114
macrophage_unactivated	-0.11	0.237
IL1	-0.73	-1.083
Rapamycin	0.209	-0.445
Tcell	0.635	1.737
GMCSF	0.09	-0.663
IFNab	-0.051	0.0
IFNg	1.016	-0.975
IFNg_GMCSF1	-0.581	0.588
Rv1432_day32	0.611	2.155
Rv1565c_day32	-0.799	0.564
secA2_input	0.266	0.725
delta_Rv3594	0.551	1.348
delta_Rv3717	0.561	3.169
delta_Rv3811	0.016	1.515
delta_Rv0954	-1.084	-0.637
PonA1	-0.332	-0.412
EccD1_KO	-0.855	-0.171
EspI_KO	-1.041	-0.305
PE35_KO	-0.05	-0.475
PPE68_KO	-0.054	0.083
glycerol2	-0.706	-0.762
lignocerate	0.022	-1.208
oleate	-0.027	0.113
phosphatidylcholine	0.052	-1.556
acetate	0.062	-0.587
glucAc	-0.079	-0.55
Rv0950ko	0.476	-0.748
Rv1096ko	-0.597	0.332
Rv3684ko	0.406	0.121
delta_otsA_trehalose	0.623	-0.221