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 Rv3124/moaR1:

update plot	correlation	link to info on gene
Rv2816c/-	(cc=0.6126)	info on Rv2816c/-
Rv1520/-	(cc=0.5855)	info on Rv1520/-
Rv3429/PPE59	(cc=0.5392)	info on Rv3429/PPE59
Rv1896c/-	(cc=0.5317)	info on Rv1896c/-
Rv2276/cyp121	(cc=0.5145)	info on Rv2276/cyp121
Rv3383c/idsB	(cc=0.5015)	info on Rv3383c/idsB
Rv2342/-	(cc=0.4969)	info on Rv2342/-
Rv0798c/cfp29	(cc=0.4938)	info on Rv0798c/cfp29
Rv0309/-	(cc=0.493)	info on Rv0309/-
Rv2527/vapC17	(cc=0.4896)	info on Rv2527/vapC17

Correlation of Rv3124/moaR1 with Rv2342/-

Normalized LFCs for Rv3124/moaR1:
(description and provenance of datasets)

	Rv3124/moaR1	Rv2342/-
Fe_supp_jason_reseq	0.259	2.014
low_pH_jason_reseq	0.806	1.765
NO_jason_reseq	0.252	2.084
B6_jason_reseq	-0.175	0.166
MHCII_jason_reseq	0.203	0.261
Isoniazid02	0.124	-1.455
Rifampicin4	-0.393	-3.141
Ethambutol3	0.989	3.495
Meropenem3	1.097	-0.724
Vancomycin16	0.499	-0.78
Rv2680_day32	1.338	-0.131
H37Rv_KO_MarP	-0.102	-0.09
hypoxia_3wks	-0.323	-3.118
hypoxia_6wks	0.397	1.336
glycerol	-0.051	2.671
cholesterol	-0.708	0.401
AJ	0.197	-0.983
Bibs02	0.971	1.491
Bibs02c	0.127	-0.136
BL6	0.982	1.822
BL6a	0.729	1.643
BXD01	1.054	1.004
BXD010	0.641	0.684
BXD011	1.144	1.145
BXD03	0.623	-0.182
BXD04	0.896	1.192
BXD05	0.941	1.654
BXD06	0.924	0.902
BXD07	0.95	0.79
BXD08	0.706	2.327
BXD09	1.104	1.569
CAST	0.472	-0.869
CCcont	1.024	1.698
DS01	0.255	-0.686
DS02	0.08	1.119
DS04	0.024	0.232
DS0c	0.377	0.0
GP01	0.561	0.118
GP02	-0.552	-0.083
GP0c	0.154	-0.175
NOD	1.071	-0.472
NZO	0.51	-1.508
PWK	0.806	0.681
H37Rv_KO_CtpC	0.366	-1.229
H37Rv_KO_CtpD	0.949	1.815
H37Rv_KO_Rv1272	1.189	0.284
H37Rv_KO_SugABC	1.435	2.595
H37Rv_KO_MbtN	0.974	2.211
Trans05	0.734	1.632
macrophage_unactivated	0.65	-0.36
IL1	0.098	0.065
Rapamycin	0.298	-0.97
Tcell	0.414	0.906
GMCSF	-0.275	-1.135
IFNab	0.1	-0.641
IFNg	-0.059	-1.392
IFNg_GMCSF1	0.368	-0.358
Rv1432_day32	-0.592	-2.579
Rv1565c_day32	0.253	0.117
secA2_input	-1.0	-0.457
delta_Rv3594	0.164	0.401
delta_Rv3717	0.182	-0.615
delta_Rv3811	-0.062	0.268
delta_Rv0954	0.138	-1.376
PonA1	-0.032	-0.083
EccD1_KO	0.493	2.128
EspI_KO	0.627	1.514
PE35_KO	0.986	2.097
PPE68_KO	1.353	2.157
glycerol2	0.106	-2.777
lignocerate	0.774	-2.806
oleate	-0.068	-1.664
phosphatidylcholine	0.468	-1.276
acetate	0.535	-0.396
glucAc	1.081	-0.139
Rv0950ko	0.899	1.583
Rv1096ko	0.118	-0.157
Rv3684ko	0.373	-0.285
delta_otsA_trehalose	0.853	-0.864