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 Rv0370c/-:

update plot	correlation	link to info on gene
Rv0827c/kmtR	(cc=0.5373)	info on Rv0827c/kmtR
Rv3291c/lrpA	(cc=0.5162)	info on Rv3291c/lrpA
Rv1891/-	(cc=0.4653)	info on Rv1891/-
Rv0845/-	(cc=0.4497)	info on Rv0845/-
Rv1397c/vapC10	(cc=0.4465)	info on Rv1397c/vapC10
Rv1662/pks8	(cc=0.4362)	info on Rv1662/pks8
Rv1507c/-	(cc=0.4336)	info on Rv1507c/-
Rv2793c/truB	(cc=0.4206)	info on Rv2793c/truB
Rv3904c/esxE	(cc=0.4159)	info on Rv3904c/esxE
Rv3023c/-	(cc=0.4149)	info on Rv3023c/-

Correlation of Rv0370c/- with Rv1662/pks8

Normalized LFCs for Rv0370c/-:
(description and provenance of datasets)

	Rv0370c/-	Rv1662/pks8
Fe_supp_jason_reseq	-0.553	-0.458
low_pH_jason_reseq	1.696	0.403
NO_jason_reseq	0.42	-0.362
B6_jason_reseq	-0.388	-0.97
MHCII_jason_reseq	-1.006	-0.509
Isoniazid02	-0.741	-0.767
Rifampicin4	0.72	-1.097
Ethambutol3	-0.912	-0.313
Meropenem3	-0.072	-1.234
Vancomycin16	0.101	-0.974
Rv2680_day32	-0.893	-0.228
H37Rv_KO_MarP	-0.416	-0.214
hypoxia_3wks	0.0	0.55
hypoxia_6wks	0.372	0.378
glycerol	0.471	-0.471
cholesterol	-0.098	-0.583
AJ	1.4	0.274
Bibs02	0.608	0.531
Bibs02c	-0.54	-0.279
BL6	0.117	0.739
BL6a	1.195	0.637
BXD01	0.042	0.496
BXD010	1.067	0.873
BXD011	1.169	0.626
BXD03	0.243	0.699
BXD04	0.382	0.64
BXD05	-0.188	0.513
BXD06	0.73	0.69
BXD07	1.112	0.75
BXD08	0.442	0.786
BXD09	0.434	0.615
CAST	-0.237	0.095
CCcont	0.633	0.694
DS01	0.075	-0.205
DS02	-0.224	-0.397
DS04	-0.2	0.436
DS0c	-0.146	-0.189
GP01	-0.594	0.584
GP02	0.052	-0.111
GP0c	-0.86	0.154
NOD	-0.775	0.0
NZO	1.631	-0.364
PWK	0.789	0.44
H37Rv_KO_CtpC	1.305	1.072
H37Rv_KO_CtpD	1.835	0.368
H37Rv_KO_Rv1272	1.819	1.677
H37Rv_KO_SugABC	1.368	-0.601
H37Rv_KO_MbtN	1.359	1.817
Trans05	1.569	0.891
macrophage_unactivated	0.518	1.016
IL1	0.985	0.558
Rapamycin	0.15	0.353
Tcell	-0.336	0.375
GMCSF	0.375	-0.108
IFNab	-0.076	0.348
IFNg	0.78	0.775
IFNg_GMCSF1	-0.408	0.911
Rv1432_day32	0.524	0.143
Rv1565c_day32	0.82	0.212
secA2_input	-0.204	-0.197
delta_Rv3594	0.058	0.474
delta_Rv3717	0.273	0.269
delta_Rv3811	-0.757	0.461
delta_Rv0954	0.704	0.46
PonA1	1.062	-0.966
EccD1_KO	0.0	-0.151
EspI_KO	0.736	-0.405
PE35_KO	0.543	0.831
PPE68_KO	0.512	0.793
glycerol2	-0.618	-0.531
lignocerate	-0.415	-0.093
oleate	-1.117	-0.469
phosphatidylcholine	-0.618	-0.106
acetate	0.658	-0.062
glucAc	0.184	0.146
Rv0950ko	0.684	0.13
Rv1096ko	1.342	1.05
Rv3684ko	0.829	0.789
delta_otsA_trehalose	-0.672	-0.15