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 Rv2796c/lppV:

update plot	correlation	link to info on gene
Rv2331A/-	(cc=0.5178)	info on Rv2331A/-
Rv2328/PE23	(cc=0.51)	info on Rv2328/PE23
Rv3445c/esxU	(cc=0.5096)	info on Rv3445c/esxU
Rv2528c/mrr	(cc=0.4615)	info on Rv2528c/mrr
Rv0523c/-	(cc=0.461)	info on Rv0523c/-
Rv2919c/glnB	(cc=0.426)	info on Rv2919c/glnB
Rv1190/-	(cc=0.4189)	info on Rv1190/-
Rv0034/-	(cc=0.4158)	info on Rv0034/-
Rv1125/-	(cc=0.4109)	info on Rv1125/-
Rv0617/vapC29	(cc=0.4092)	info on Rv0617/vapC29

Correlation of Rv2796c/lppV with Rv2331A/-

Normalized LFCs for Rv2796c/lppV:
(description and provenance of datasets)

	Rv2796c/lppV	Rv2331A/-
Fe_supp_jason_reseq	-0.028	-0.303
low_pH_jason_reseq	-0.448	-0.581
NO_jason_reseq	0.669	0.961
B6_jason_reseq	0.761	0.625
MHCII_jason_reseq	-0.046	0.055
Isoniazid02	-0.247	0.611
Rifampicin4	-0.512	0.249
Ethambutol3	0.119	-0.024
Meropenem3	-0.01	-0.359
Vancomycin16	0.111	-0.202
Rv2680_day32	0.582	-1.289
H37Rv_KO_MarP	0.869	0.804
hypoxia_3wks	-0.136	-0.686
hypoxia_6wks	0.357	0.833
glycerol	-0.124	-0.192
cholesterol	-0.275	0.3
AJ	0.543	0.896
Bibs02	0.505	-1.34
Bibs02c	0.781	-0.417
BL6	0.33	-0.968
BL6a	0.547	-0.507
BXD01	0.213	-0.748
BXD010	0.431	0.716
BXD011	-0.091	-0.822
BXD03	0.357	-0.516
BXD04	0.499	-0.864
BXD05	0.066	0.045
BXD06	0.186	-0.322
BXD07	0.117	-0.541
BXD08	-0.127	-0.26
BXD09	0.057	-0.359
CAST	0.269	0.14
CCcont	0.055	-1.112
DS01	0.876	-0.647
DS02	0.868	-0.019
DS04	0.877	0.097
DS0c	1.067	0.006
GP01	0.185	-1.468
GP02	-1.339	0.418
GP0c	-0.004	-2.744
NOD	0.158	0.195
NZO	-0.013	0.464
PWK	0.294	-0.023
H37Rv_KO_CtpC	-0.574	0.085
H37Rv_KO_CtpD	-2.056	-1.192
H37Rv_KO_Rv1272	-0.736	1.059
H37Rv_KO_SugABC	-1.26	-2.029
H37Rv_KO_MbtN	-0.904	-0.072
Trans05	0.235	-1.266
macrophage_unactivated	-0.24	-1.695
IL1	0.05	-0.448
Rapamycin	-0.792	-0.288
Tcell	-0.072	-0.609
GMCSF	1.077	0.0
IFNab	-0.973	-0.701
IFNg	-0.537	-2.183
IFNg_GMCSF1	3.337	3.972
Rv1432_day32	0.669	-0.312
Rv1565c_day32	-0.303	0.791
secA2_input	0.632	-1.028
delta_Rv3594	0.794	0.248
delta_Rv3717	-0.581	0.147
delta_Rv3811	0.409	0.724
delta_Rv0954	0.081	-0.189
PonA1	1.489	0.955
EccD1_KO	0.181	0.645
EspI_KO	0.992	2.464
PE35_KO	0.68	0.601
PPE68_KO	-0.352	0.861
glycerol2	0.413	0.311
lignocerate	0.918	1.12
oleate	-0.06	0.0
phosphatidylcholine	0.34	0.536
acetate	0.716	0.449
glucAc	0.846	1.604
Rv0950ko	0.332	0.274
Rv1096ko	0.199	1.224
Rv3684ko	0.56	0.874
delta_otsA_trehalose	-1.466	-2.441