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 Rv3018c/PPE46

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

	Rv2332/mez	Rv3018c/PPE46
Fe_supp_jason_reseq	0.751	0.379
low_pH_jason_reseq	-0.437	-0.125
NO_jason_reseq	-0.076	0.391
B6_jason_reseq	0.227	0.618
MHCII_jason_reseq	0.472	0.516
Isoniazid02	1.672	0.911
Rifampicin4	0.181	0.921
Ethambutol3	0.955	1.828
Meropenem3	0.319	0.552
Vancomycin16	0.424	0.446
Rv2680_day32	0.305	0.505
H37Rv_KO_MarP	0.356	0.274
hypoxia_3wks	0.363	-0.471
hypoxia_6wks	0.0	-0.173
glycerol	-0.806	0.181
cholesterol	-0.336	0.214
AJ	0.534	0.706
Bibs02	0.246	0.576
Bibs02c	0.091	0.117
BL6	-0.165	0.246
BL6a	-0.06	0.304
BXD01	-0.059	0.339
BXD010	-0.243	0.369
BXD011	0.103	0.524
BXD03	-0.4	0.274
BXD04	0.25	-0.046
BXD05	-0.103	0.611
BXD06	-0.041	0.556
BXD07	0.08	0.281
BXD08	-0.276	0.433
BXD09	0.225	0.208
CAST	0.557	0.676
CCcont	-0.365	0.173
DS01	0.046	0.318
DS02	-0.099	0.016
DS04	0.423	0.287
DS0c	-0.179	0.107
GP01	-0.279	0.435
GP02	-0.658	0.288
GP0c	-1.335	-0.339
NOD	0.747	1.173
NZO	0.552	0.331
PWK	0.364	0.628
H37Rv_KO_CtpC	-0.16	0.613
H37Rv_KO_CtpD	0.103	0.758
H37Rv_KO_Rv1272	0.208	0.949
H37Rv_KO_SugABC	0.444	0.64
H37Rv_KO_MbtN	0.074	0.582
Trans05	0.874	0.563
macrophage_unactivated	-0.3	-0.117
IL1	-0.362	-0.807
Rapamycin	-0.752	-0.571
Tcell	-0.609	-1.062
GMCSF	-0.752	-0.536
IFNab	-0.396	-1.24
IFNg	-1.101	-1.018
IFNg_GMCSF1	-0.927	-0.613
Rv1432_day32	0.81	0.229
Rv1565c_day32	0.376	0.55
secA2_input	-0.794	-0.706
delta_Rv3594	-0.257	-0.128
delta_Rv3717	-0.614	-0.837
delta_Rv3811	-0.228	-0.333
delta_Rv0954	-0.497	-0.335
PonA1	0.433	-0.404
EccD1_KO	0.464	-0.22
EspI_KO	0.707	0.163
PE35_KO	0.368	-0.02
PPE68_KO	0.477	0.138
glycerol2	0.67	0.807
lignocerate	0.664	1.119
oleate	0.543	0.055
phosphatidylcholine	0.647	0.961
acetate	0.221	0.987
glucAc	0.187	0.667
Rv0950ko	-0.555	0.021
Rv1096ko	-0.79	-0.232
Rv3684ko	-1.294	-0.567
delta_otsA_trehalose	-0.092	-0.458