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 Rv1200/-:

update plot	correlation	link to info on gene
Rv0327c/cyp135A1	(cc=0.5344)	info on Rv0327c/cyp135A1
Rv0843/-	(cc=0.5215)	info on Rv0843/-
Rv0906/-	(cc=0.5156)	info on Rv0906/-
Rv0488/-	(cc=0.5069)	info on Rv0488/-
Rv1087A/-	(cc=0.5033)	info on Rv1087A/-
Rv2675c/-	(cc=0.4877)	info on Rv2675c/-
Rv0790c/-	(cc=0.4862)	info on Rv0790c/-
Rv0617/vapC29	(cc=0.4844)	info on Rv0617/vapC29
Rv3096/-	(cc=0.4687)	info on Rv3096/-
Rv3094c/-	(cc=0.4609)	info on Rv3094c/-

Correlation of Rv1200/- with Rv0327c/cyp135A1

Normalized LFCs for Rv1200/-:
(description and provenance of datasets)

	Rv1200/-	Rv0327c/cyp135A1
Fe_supp_jason_reseq	0.126	0.12
low_pH_jason_reseq	-0.236	0.095
NO_jason_reseq	0.097	-0.433
B6_jason_reseq	0.573	1.032
MHCII_jason_reseq	1.227	2.121
Isoniazid02	-0.611	-0.463
Rifampicin4	-0.233	-0.615
Ethambutol3	-0.268	-0.173
Meropenem3	-0.289	-0.252
Vancomycin16	-0.769	-0.122
Rv2680_day32	-0.677	-0.688
H37Rv_KO_MarP	-0.027	-0.086
hypoxia_3wks	0.044	-0.55
hypoxia_6wks	-0.058	-0.403
glycerol	-0.383	-0.455
cholesterol	-0.156	-0.52
AJ	-0.084	0.605
Bibs02	0.51	-0.242
Bibs02c	0.399	1.023
BL6	0.419	0.414
BL6a	0.284	0.393
BXD01	0.021	-0.636
BXD010	-0.324	0.151
BXD011	0.02	-0.136
BXD03	0.093	-0.372
BXD04	0.215	-0.573
BXD05	0.551	-0.44
BXD06	-0.075	-0.367
BXD07	0.237	-0.482
BXD08	0.087	-0.021
BXD09	-0.109	-0.401
CAST	0.167	0.335
CCcont	0.035	-0.308
DS01	0.512	0.108
DS02	0.436	-0.104
DS04	0.119	-0.514
DS0c	0.663	0.669
GP01	-0.574	0.202
GP02	0.013	0.999
GP0c	-0.199	-0.219
NOD	0.33	-0.22
NZO	0.501	-0.064
PWK	0.128	0.271
H37Rv_KO_CtpC	-0.293	-1.103
H37Rv_KO_CtpD	0.417	-0.273
H37Rv_KO_Rv1272	0.178	-0.778
H37Rv_KO_SugABC	0.479	-1.177
H37Rv_KO_MbtN	0.779	-0.902
Trans05	0.036	-0.346
macrophage_unactivated	0.549	0.65
IL1	0.018	-0.341
Rapamycin	-0.052	-0.448
Tcell	0.248	0.222
GMCSF	0.42	0.481
IFNab	0.23	0.245
IFNg	0.233	0.11
IFNg_GMCSF1	0.273	0.76
Rv1432_day32	0.216	0.0
Rv1565c_day32	0.174	0.398
secA2_input	0.106	-0.033
delta_Rv3594	-0.346	-0.791
delta_Rv3717	0.0	-0.268
delta_Rv3811	0.028	-0.457
delta_Rv0954	-0.292	-0.16
PonA1	-0.052	0.557
EccD1_KO	0.122	0.457
EspI_KO	0.334	-0.094
PE35_KO	0.54	0.362
PPE68_KO	0.739	0.538
glycerol2	0.853	0.298
lignocerate	0.706	1.14
oleate	0.44	-0.578
phosphatidylcholine	0.926	0.604
acetate	0.426	1.119
glucAc	0.731	0.696
Rv0950ko	0.317	1.173
Rv1096ko	0.44	0.627
Rv3684ko	0.57	0.96
delta_otsA_trehalose	-0.776	-1.732