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 Rv0846c/-

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

	Rv2332/mez	Rv0846c/-
Fe_supp_jason_reseq	0.751	-0.444
low_pH_jason_reseq	-0.437	-0.547
NO_jason_reseq	-0.076	-0.404
B6_jason_reseq	0.227	1.345
MHCII_jason_reseq	0.472	1.352
Isoniazid02	1.672	0.8
Rifampicin4	0.181	-0.095
Ethambutol3	0.955	0.551
Meropenem3	0.319	0.041
Vancomycin16	0.424	0.09
Rv2680_day32	0.305	0.29
H37Rv_KO_MarP	0.356	0.809
hypoxia_3wks	0.363	0.813
hypoxia_6wks	0.0	1.76
glycerol	-0.806	-0.856
cholesterol	-0.336	-0.157
AJ	0.534	0.598
Bibs02	0.246	0.695
Bibs02c	0.091	0.279
BL6	-0.165	-0.501
BL6a	-0.06	-0.34
BXD01	-0.059	-0.665
BXD010	-0.243	-0.208
BXD011	0.103	0.01
BXD03	-0.4	0.022
BXD04	0.25	-1.062
BXD05	-0.103	0.216
BXD06	-0.041	-0.581
BXD07	0.08	-0.724
BXD08	-0.276	-0.318
BXD09	0.225	-0.484
CAST	0.557	0.053
CCcont	-0.365	-1.231
DS01	0.046	0.778
DS02	-0.099	0.493
DS04	0.423	0.427
DS0c	-0.179	0.035
GP01	-0.279	-0.031
GP02	-0.658	-0.715
GP0c	-1.335	-1.433
NOD	0.747	0.495
NZO	0.552	0.452
PWK	0.364	-0.283
H37Rv_KO_CtpC	-0.16	-1.151
H37Rv_KO_CtpD	0.103	0.246
H37Rv_KO_Rv1272	0.208	0.011
H37Rv_KO_SugABC	0.444	-0.288
H37Rv_KO_MbtN	0.074	-0.609
Trans05	0.874	-0.153
macrophage_unactivated	-0.3	-1.152
IL1	-0.362	-0.854
Rapamycin	-0.752	-1.059
Tcell	-0.609	-0.587
GMCSF	-0.752	-0.428
IFNab	-0.396	-0.871
IFNg	-1.101	-1.248
IFNg_GMCSF1	-0.927	-0.619
Rv1432_day32	0.81	0.799
Rv1565c_day32	0.376	0.516
secA2_input	-0.794	0.058
delta_Rv3594	-0.257	0.392
delta_Rv3717	-0.614	-0.361
delta_Rv3811	-0.228	-0.427
delta_Rv0954	-0.497	0.857
PonA1	0.433	-0.675
EccD1_KO	0.464	-0.329
EspI_KO	0.707	0.2
PE35_KO	0.368	1.365
PPE68_KO	0.477	0.71
glycerol2	0.67	0.14
lignocerate	0.664	0.15
oleate	0.543	0.597
phosphatidylcholine	0.647	0.479
acetate	0.221	-0.178
glucAc	0.187	0.804
Rv0950ko	-0.555	-0.048
Rv1096ko	-0.79	-0.63
Rv3684ko	-1.294	-0.937
delta_otsA_trehalose	-0.092	0.803