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 Rv1398c/vapB10:

update plot	correlation	link to info on gene
Rv1430/PE16	(cc=0.4664)	info on Rv1430/PE16
Rv2792c/-	(cc=0.4533)	info on Rv2792c/-
Rv1962A/vapB35	(cc=0.4515)	info on Rv1962A/vapB35
Rv1505c/-	(cc=0.4461)	info on Rv1505c/-
Rv3166c/-	(cc=0.4167)	info on Rv3166c/-
Rv1954c/-	(cc=0.405)	info on Rv1954c/-
Rv2248/-	(cc=0.4039)	info on Rv2248/-
Rv3698/-	(cc=0.4008)	info on Rv3698/-
Rv2545/vapB18	(cc=0.4001)	info on Rv2545/vapB18
Rv2818c/-	(cc=0.3992)	info on Rv2818c/-

Correlation of Rv1398c/vapB10 with Rv2248/-

Normalized LFCs for Rv1398c/vapB10:
(description and provenance of datasets)

	Rv1398c/vapB10	Rv2248/-
Fe_supp_jason_reseq	-0.834	-0.969
low_pH_jason_reseq	-0.773	-0.236
NO_jason_reseq	-0.189	-0.541
B6_jason_reseq	-1.519	-0.065
MHCII_jason_reseq	0.368	1.194
Isoniazid02	0.976	0.346
Rifampicin4	-1.018	0.29
Ethambutol3	1.727	0.212
Meropenem3	-0.223	0.701
Vancomycin16	-0.305	0.546
Rv2680_day32	-0.968	1.05
H37Rv_KO_MarP	-0.59	-0.968
hypoxia_3wks	0.622	0.598
hypoxia_6wks	-1.006	-0.393
glycerol	1.81	0.186
cholesterol	0.282	0.133
AJ	-0.373	-0.276
Bibs02	0.083	0.535
Bibs02c	0.638	0.13
BL6	1.081	0.335
BL6a	0.763	0.123
BXD01	0.968	0.994
BXD010	0.777	0.226
BXD011	-0.125	0.724
BXD03	0.847	0.743
BXD04	0.663	0.02
BXD05	-0.159	-0.456
BXD06	0.061	0.254
BXD07	0.93	0.694
BXD08	1.599	0.875
BXD09	0.359	0.618
CAST	0.085	0.964
CCcont	0.833	0.525
DS01	1.266	0.748
DS02	-0.654	-0.551
DS04	1.114	0.37
DS0c	1.315	1.537
GP01	-1.062	0.455
GP02	0.618	0.481
GP0c	0.768	0.727
NOD	2.298	-0.228
NZO	-0.808	0.032
PWK	-0.449	-0.031
H37Rv_KO_CtpC	1.43	1.278
H37Rv_KO_CtpD	1.668	1.044
H37Rv_KO_Rv1272	1.593	-1.044
H37Rv_KO_SugABC	-1.297	-0.702
H37Rv_KO_MbtN	-1.419	-0.987
Trans05	0.529	-0.155
macrophage_unactivated	0.799	1.256
IL1	0.575	1.439
Rapamycin	0.534	1.019
Tcell	2.281	0.668
GMCSF	-0.124	0.694
IFNab	0.556	1.503
IFNg	0.676	1.328
IFNg_GMCSF1	0.179	1.637
Rv1432_day32	0.911	0.18
Rv1565c_day32	0.199	0.373
secA2_input	-1.766	-1.127
delta_Rv3594	0.734	0.707
delta_Rv3717	-0.274	0.836
delta_Rv3811	0.819	0.937
delta_Rv0954	0.017	0.231
PonA1	-0.375	0.463
EccD1_KO	-0.747	-0.599
EspI_KO	-0.191	-0.764
PE35_KO	1.219	0.07
PPE68_KO	1.245	0.374
glycerol2	0.287	0.036
lignocerate	0.18	0.14
oleate	0.79	-0.284
phosphatidylcholine	0.753	-0.038
acetate	-0.166	0.233
glucAc	-0.53	0.376
Rv0950ko	0.084	0.133
Rv1096ko	0.166	-0.57
Rv3684ko	-1.389	0.072
delta_otsA_trehalose	0.099	0.539