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 Rv2816c/-

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

	Rv3124/moaR1	Rv2816c/-
Fe_supp_jason_reseq	0.259	1.156
low_pH_jason_reseq	0.806	-0.803
NO_jason_reseq	0.252	-0.221
B6_jason_reseq	-0.175	0.577
MHCII_jason_reseq	0.203	0.527
Isoniazid02	0.124	-0.563
Rifampicin4	-0.393	-0.902
Ethambutol3	0.989	1.025
Meropenem3	1.097	0.365
Vancomycin16	0.499	0.111
Rv2680_day32	1.338	2.122
H37Rv_KO_MarP	-0.102	-0.559
hypoxia_3wks	-0.323	0.215
hypoxia_6wks	0.397	-0.088
glycerol	-0.051	0.464
cholesterol	-0.708	-0.782
AJ	0.197	0.698
Bibs02	0.971	0.624
Bibs02c	0.127	-1.634
BL6	0.982	1.525
BL6a	0.729	1.416
BXD01	1.054	1.344
BXD010	0.641	0.437
BXD011	1.144	1.224
BXD03	0.623	1.836
BXD04	0.896	1.171
BXD05	0.941	1.46
BXD06	0.924	1.244
BXD07	0.95	1.259
BXD08	0.706	1.209
BXD09	1.104	1.309
CAST	0.472	-0.13
CCcont	1.024	1.162
DS01	0.255	0.506
DS02	0.08	0.079
DS04	0.024	-0.306
DS0c	0.377	0.985
GP01	0.561	0.053
GP02	-0.552	0.64
GP0c	0.154	0.427
NOD	1.071	3.461
NZO	0.51	1.172
PWK	0.806	-0.149
H37Rv_KO_CtpC	0.366	0.885
H37Rv_KO_CtpD	0.949	-0.807
H37Rv_KO_Rv1272	1.189	0.983
H37Rv_KO_SugABC	1.435	2.137
H37Rv_KO_MbtN	0.974	0.492
Trans05	0.734	1.366
macrophage_unactivated	0.65	-0.142
IL1	0.098	-0.273
Rapamycin	0.298	-0.786
Tcell	0.414	-0.111
GMCSF	-0.275	0.058
IFNab	0.1	-0.898
IFNg	-0.059	-0.12
IFNg_GMCSF1	0.368	-1.291
Rv1432_day32	-0.592	0.0
Rv1565c_day32	0.253	-0.6
secA2_input	-1.0	-2.336
delta_Rv3594	0.164	-0.575
delta_Rv3717	0.182	-0.703
delta_Rv3811	-0.062	-0.802
delta_Rv0954	0.138	-1.176
PonA1	-0.032	-0.913
EccD1_KO	0.493	-0.066
EspI_KO	0.627	0.422
PE35_KO	0.986	0.823
PPE68_KO	1.353	1.389
glycerol2	0.106	0.684
lignocerate	0.774	0.367
oleate	-0.068	0.213
phosphatidylcholine	0.468	0.538
acetate	0.535	0.638
glucAc	1.081	0.369
Rv0950ko	0.899	-0.172
Rv1096ko	0.118	-0.425
Rv3684ko	0.373	-0.036
delta_otsA_trehalose	0.853	-0.409