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 Rv0893c/-:

update plot	correlation	link to info on gene
Rv1199c/-	(cc=0.5739)	info on Rv1199c/-
Rv2512c/-	(cc=0.5406)	info on Rv2512c/-
Rv0755c/PPE12	(cc=0.5152)	info on Rv0755c/PPE12
Rv1676/-	(cc=0.48)	info on Rv1676/-
Rv1260/-	(cc=0.4587)	info on Rv1260/-
Rv3115/-	(cc=0.4523)	info on Rv3115/-
Rv1597/-	(cc=0.4394)	info on Rv1597/-
Rv2176/pknL	(cc=0.4386)	info on Rv2176/pknL
Rv3679/-	(cc=0.4238)	info on Rv3679/-
Rv2432c/-	(cc=0.4196)	info on Rv2432c/-

Correlation of Rv0893c/- with Rv0755c/PPE12

Normalized LFCs for Rv0893c/-:
(description and provenance of datasets)

	Rv0893c/-	Rv0755c/PPE12
Fe_supp_jason_reseq	-1.626	-0.553
low_pH_jason_reseq	0.448	-0.634
NO_jason_reseq	0.953	-0.179
B6_jason_reseq	-0.449	-0.128
MHCII_jason_reseq	0.189	1.052
Isoniazid02	0.0	-0.316
Rifampicin4	0.0	-0.092
Ethambutol3	-0.281	0.585
Meropenem3	-0.435	-0.307
Vancomycin16	0.528	0.34
Rv2680_day32	0.337	-0.516
H37Rv_KO_MarP	0.26	0.628
hypoxia_3wks	0.183	-0.104
hypoxia_6wks	0.691	-0.34
glycerol	0.66	0.353
cholesterol	0.358	-0.482
AJ	0.232	0.785
Bibs02	2.078	0.832
Bibs02c	0.684	1.028
BL6	0.0	-0.518
BL6a	0.544	0.528
BXD01	-0.361	0.207
BXD010	0.513	0.879
BXD011	0.315	1.712
BXD03	0.664	0.075
BXD04	0.66	-0.176
BXD05	1.397	0.491
BXD06	0.401	0.025
BXD07	0.182	0.052
BXD08	-0.431	-0.189
BXD09	0.268	-0.14
CAST	0.078	0.402
CCcont	-0.053	0.083
DS01	1.947	0.799
DS02	1.613	1.068
DS04	1.192	0.682
DS0c	1.332	0.933
GP01	-0.715	-0.66
GP02	-0.159	-0.299
GP0c	0.694	-0.654
NOD	-0.08	0.76
NZO	0.068	0.858
PWK	-0.216	0.689
H37Rv_KO_CtpC	1.028	1.014
H37Rv_KO_CtpD	1.658	1.246
H37Rv_KO_Rv1272	1.093	0.417
H37Rv_KO_SugABC	0.751	-0.078
H37Rv_KO_MbtN	-0.24	-0.081
Trans05	-0.363	0.29
macrophage_unactivated	-0.275	-0.915
IL1	-0.258	-0.24
Rapamycin	-0.703	-1.194
Tcell	-0.433	-0.355
GMCSF	-0.605	-0.681
IFNab	0.0	-1.611
IFNg	-0.484	-0.861
IFNg_GMCSF1	-0.88	-0.811
Rv1432_day32	0.0	-0.206
Rv1565c_day32	0.234	-0.486
secA2_input	-0.787	-0.65
delta_Rv3594	0.616	0.038
delta_Rv3717	-0.185	-0.886
delta_Rv3811	0.321	-0.507
delta_Rv0954	-0.328	0.096
PonA1	-0.293	-0.719
EccD1_KO	0.263	0.444
EspI_KO	0.117	0.935
PE35_KO	0.455	0.318
PPE68_KO	-0.272	0.432
glycerol2	0.559	0.347
lignocerate	0.913	0.347
oleate	-0.411	-0.065
phosphatidylcholine	0.559	0.643
acetate	0.743	0.181
glucAc	0.605	-0.024
Rv0950ko	-0.899	0.223
Rv1096ko	-0.633	-0.483
Rv3684ko	-1.074	-0.085
delta_otsA_trehalose	-0.491	0.345