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 Rv3166c/-

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

	Rv1398c/vapB10	Rv3166c/-
Fe_supp_jason_reseq	-0.834	1.028
low_pH_jason_reseq	-0.773	0.482
NO_jason_reseq	-0.189	0.087
B6_jason_reseq	-1.519	-1.11
MHCII_jason_reseq	0.368	-0.193
Isoniazid02	0.976	0.412
Rifampicin4	-1.018	-0.073
Ethambutol3	1.727	0.501
Meropenem3	-0.223	0.214
Vancomycin16	-0.305	0.21
Rv2680_day32	-0.968	0.781
H37Rv_KO_MarP	-0.59	0.183
hypoxia_3wks	0.622	0.0
hypoxia_6wks	-1.006	-0.336
glycerol	1.81	0.803
cholesterol	0.282	0.497
AJ	-0.373	0.861
Bibs02	0.083	-0.621
Bibs02c	0.638	1.303
BL6	1.081	1.769
BL6a	0.763	2.045
BXD01	0.968	1.207
BXD010	0.777	0.811
BXD011	-0.125	1.128
BXD03	0.847	1.462
BXD04	0.663	1.549
BXD05	-0.159	1.91
BXD06	0.061	1.378
BXD07	0.93	1.851
BXD08	1.599	1.11
BXD09	0.359	1.744
CAST	0.085	-0.284
CCcont	0.833	1.322
DS01	1.266	0.219
DS02	-0.654	0.277
DS04	1.114	0.28
DS0c	1.315	0.082
GP01	-1.062	-0.079
GP02	0.618	1.205
GP0c	0.768	0.694
NOD	2.298	1.009
NZO	-0.808	-0.525
PWK	-0.449	-1.138
H37Rv_KO_CtpC	1.43	1.129
H37Rv_KO_CtpD	1.668	2.225
H37Rv_KO_Rv1272	1.593	0.296
H37Rv_KO_SugABC	-1.297	0.159
H37Rv_KO_MbtN	-1.419	-0.22
Trans05	0.529	0.097
macrophage_unactivated	0.799	0.71
IL1	0.575	0.86
Rapamycin	0.534	1.019
Tcell	2.281	0.248
GMCSF	-0.124	0.158
IFNab	0.556	1.128
IFNg	0.676	0.115
IFNg_GMCSF1	0.179	1.439
Rv1432_day32	0.911	0.931
Rv1565c_day32	0.199	0.035
secA2_input	-1.766	-0.233
delta_Rv3594	0.734	0.537
delta_Rv3717	-0.274	-0.866
delta_Rv3811	0.819	-0.235
delta_Rv0954	0.017	-0.544
PonA1	-0.375	-0.922
EccD1_KO	-0.747	0.533
EspI_KO	-0.191	0.639
PE35_KO	1.219	0.359
PPE68_KO	1.245	0.266
glycerol2	0.287	-0.319
lignocerate	0.18	0.222
oleate	0.79	-0.323
phosphatidylcholine	0.753	0.088
acetate	-0.166	0.53
glucAc	-0.53	0.233
Rv0950ko	0.084	-1.101
Rv1096ko	0.166	-1.143
Rv3684ko	-1.389	-0.789
delta_otsA_trehalose	0.099	-0.826