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 Rv2332/mez:

update plot	correlation	link to info on gene
Rv3018c/PPE46	(cc=0.6556)	info on Rv3018c/PPE46
Rv2958c/-	(cc=0.6158)	info on Rv2958c/-
Rv3136A/-	(cc=0.5801)	info on Rv3136A/-
Rv1056/-	(cc=0.5729)	info on Rv1056/-
Rv1614/lgt	(cc=0.5638)	info on Rv1614/lgt
Rv0846c/-	(cc=0.551)	info on Rv0846c/-
Rv1182/papA3	(cc=0.5508)	info on Rv1182/papA3
Rv0686/-	(cc=0.5378)	info on Rv0686/-
Rv2517c/-	(cc=0.5354)	info on Rv2517c/-
Rv3784/-	(cc=0.5243)	info on Rv3784/-

Correlation of Rv2332/mez with Rv1614/lgt

Normalized LFCs for Rv2332/mez:
(description and provenance of datasets)

	Rv2332/mez	Rv1614/lgt
Fe_supp_jason_reseq	0.751	0.605
low_pH_jason_reseq	-0.437	0.296
NO_jason_reseq	-0.076	0.16
B6_jason_reseq	0.227	0.256
MHCII_jason_reseq	0.472	0.708
Isoniazid02	1.672	1.638
Rifampicin4	0.181	0.173
Ethambutol3	0.955	1.509
Meropenem3	0.319	-0.662
Vancomycin16	0.424	0.334
Rv2680_day32	0.305	0.668
H37Rv_KO_MarP	0.356	0.608
hypoxia_3wks	0.363	-0.722
hypoxia_6wks	0.0	0.334
glycerol	-0.806	0.243
cholesterol	-0.336	0.744
AJ	0.534	0.279
Bibs02	0.246	-0.358
Bibs02c	0.091	0.643
BL6	-0.165	0.408
BL6a	-0.06	0.369
BXD01	-0.059	-0.14
BXD010	-0.243	0.0
BXD011	0.103	-0.372
BXD03	-0.4	0.163
BXD04	0.25	-1.217
BXD05	-0.103	0.94
BXD06	-0.041	-0.806
BXD07	0.08	-0.148
BXD08	-0.276	-0.581
BXD09	0.225	-0.073
CAST	0.557	1.071
CCcont	-0.365	0.145
DS01	0.046	0.284
DS02	-0.099	-0.788
DS04	0.423	-0.634
DS0c	-0.179	-0.358
GP01	-0.279	0.119
GP02	-0.658	0.172
GP0c	-1.335	-1.045
NOD	0.747	-0.241
NZO	0.552	0.828
PWK	0.364	-0.267
H37Rv_KO_CtpC	-0.16	-0.474
H37Rv_KO_CtpD	0.103	-0.951
H37Rv_KO_Rv1272	0.208	-0.412
H37Rv_KO_SugABC	0.444	-0.194
H37Rv_KO_MbtN	0.074	-0.774
Trans05	0.874	0.157
macrophage_unactivated	-0.3	-0.3
IL1	-0.362	-1.78
Rapamycin	-0.752	-1.059
Tcell	-0.609	-1.522
GMCSF	-0.752	0.457
IFNab	-0.396	-0.704
IFNg	-1.101	-0.719
IFNg_GMCSF1	-0.927	-0.732
Rv1432_day32	0.81	0.279
Rv1565c_day32	0.376	0.978
secA2_input	-0.794	-0.759
delta_Rv3594	-0.257	0.304
delta_Rv3717	-0.614	-0.14
delta_Rv3811	-0.228	0.296
delta_Rv0954	-0.497	-1.096
PonA1	0.433	-0.419
EccD1_KO	0.464	0.664
EspI_KO	0.707	0.576
PE35_KO	0.368	0.939
PPE68_KO	0.477	1.552
glycerol2	0.67	0.238
lignocerate	0.664	0.591
oleate	0.543	0.496
phosphatidylcholine	0.647	0.368
acetate	0.221	1.308
glucAc	0.187	0.209
Rv0950ko	-0.555	-0.63
Rv1096ko	-0.79	-0.914
Rv3684ko	-1.294	-1.49
delta_otsA_trehalose	-0.092	-0.406