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 Rv3576/lppH:

update plot	correlation	link to info on gene
Rv0140/-	(cc=0.4595)	info on Rv0140/-
Rv0944/-	(cc=0.4545)	info on Rv0944/-
Rv3528c/-	(cc=0.426)	info on Rv3528c/-
Rv0282/eccA3	(cc=0.419)	info on Rv0282/eccA3
Rv0055/rpsR1	(cc=0.4133)	info on Rv0055/rpsR1
Rv3706c/-	(cc=0.4068)	info on Rv3706c/-
Rv0397A/-	(cc=0.4058)	info on Rv0397A/-
Rv2751/-	(cc=0.4057)	info on Rv2751/-
Rv2497c/bkdA	(cc=0.3981)	info on Rv2497c/bkdA
Rv0342/iniA	(cc=0.3911)	info on Rv0342/iniA

Correlation of Rv3576/lppH with Rv0342/iniA

Normalized LFCs for Rv3576/lppH:
(description and provenance of datasets)

	Rv3576/lppH	Rv0342/iniA
Fe_supp_jason_reseq	-0.753	-0.583
low_pH_jason_reseq	0.35	-0.781
NO_jason_reseq	0.029	0.795
B6_jason_reseq	-0.579	0.252
MHCII_jason_reseq	0.829	0.5
Isoniazid02	-0.544	-2.219
Rifampicin4	-0.319	0.33
Ethambutol3	-0.775	-2.382
Meropenem3	-0.581	-1.242
Vancomycin16	-0.342	-0.7
Rv2680_day32	-0.152	-0.18
H37Rv_KO_MarP	-0.037	0.368
hypoxia_3wks	-0.419	-0.112
hypoxia_6wks	-0.129	-0.535
glycerol	0.149	0.532
cholesterol	0.164	0.446
AJ	0.19	0.765
Bibs02	-0.23	0.009
Bibs02c	0.682	-0.656
BL6	-0.245	-0.238
BL6a	0.354	-0.331
BXD01	0.075	-0.119
BXD010	-0.137	-0.076
BXD011	0.114	0.106
BXD03	0.622	0.207
BXD04	0.101	0.058
BXD05	0.604	0.414
BXD06	0.546	0.387
BXD07	0.316	-0.097
BXD08	0.312	0.05
BXD09	0.148	-0.062
CAST	0.077	0.322
CCcont	0.309	-0.276
DS01	0.0	-0.477
DS02	-0.173	0.221
DS04	-0.703	-0.646
DS0c	0.539	0.489
GP01	0.527	0.527
GP02	-0.43	0.28
GP0c	-0.534	0.068
NOD	0.254	0.042
NZO	0.225	0.549
PWK	-0.085	0.517
H37Rv_KO_CtpC	0.146	0.207
H37Rv_KO_CtpD	-1.868	-0.05
H37Rv_KO_Rv1272	1.39	0.588
H37Rv_KO_SugABC	1.149	0.512
H37Rv_KO_MbtN	0.052	0.24
Trans05	0.873	0.793
macrophage_unactivated	0.669	-0.429
IL1	0.0	-0.35
Rapamycin	0.061	0.147
Tcell	-0.065	-0.081
GMCSF	0.053	-0.312
IFNab	0.692	0.239
IFNg	-0.334	-0.155
IFNg_GMCSF1	-1.131	0.176
Rv1432_day32	-0.087	0.186
Rv1565c_day32	-0.802	0.39
secA2_input	0.357	0.564
delta_Rv3594	-0.049	-0.509
delta_Rv3717	-1.354	-0.352
delta_Rv3811	-0.654	-0.495
delta_Rv0954	-0.478	-0.351
PonA1	-0.321	-0.163
EccD1_KO	-1.276	0.023
EspI_KO	-0.739	-0.522
PE35_KO	-0.376	-0.292
PPE68_KO	-0.598	-0.659
glycerol2	0.018	0.423
lignocerate	0.075	0.66
oleate	0.052	0.461
phosphatidylcholine	0.472	0.391
acetate	-0.151	0.632
glucAc	-0.067	0.381
Rv0950ko	0.633	0.286
Rv1096ko	0.142	0.531
Rv3684ko	0.724	0.311
delta_otsA_trehalose	-0.15	1.165