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 Rv1954c/-

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

	Rv1398c/vapB10	Rv1954c/-
Fe_supp_jason_reseq	-0.834	-0.147
low_pH_jason_reseq	-0.773	-0.927
NO_jason_reseq	-0.189	0.656
B6_jason_reseq	-1.519	-0.253
MHCII_jason_reseq	0.368	-0.123
Isoniazid02	0.976	-0.595
Rifampicin4	-1.018	-0.122
Ethambutol3	1.727	2.064
Meropenem3	-0.223	-0.437
Vancomycin16	-0.305	-0.663
Rv2680_day32	-0.968	0.686
H37Rv_KO_MarP	-0.59	0.202
hypoxia_3wks	0.622	-0.873
hypoxia_6wks	-1.006	-0.482
glycerol	1.81	-0.36
cholesterol	0.282	-0.96
AJ	-0.373	-0.432
Bibs02	0.083	-0.34
Bibs02c	0.638	-0.655
BL6	1.081	0.99
BL6a	0.763	-0.129
BXD01	0.968	-0.306
BXD010	0.777	0.224
BXD011	-0.125	0.237
BXD03	0.847	0.336
BXD04	0.663	-0.081
BXD05	-0.159	0.604
BXD06	0.061	0.249
BXD07	0.93	0.269
BXD08	1.599	0.183
BXD09	0.359	0.206
CAST	0.085	-0.609
CCcont	0.833	-0.529
DS01	1.266	-0.197
DS02	-0.654	-0.457
DS04	1.114	0.25
DS0c	1.315	-0.236
GP01	-1.062	-0.014
GP02	0.618	0.731
GP0c	0.768	0.152
NOD	2.298	1.053
NZO	-0.808	-0.598
PWK	-0.449	-0.649
H37Rv_KO_CtpC	1.43	-0.177
H37Rv_KO_CtpD	1.668	-0.682
H37Rv_KO_Rv1272	1.593	1.088
H37Rv_KO_SugABC	-1.297	-1.919
H37Rv_KO_MbtN	-1.419	-1.354
Trans05	0.529	0.499
macrophage_unactivated	0.799	0.641
IL1	0.575	-0.104
Rapamycin	0.534	0.092
Tcell	2.281	-0.16
GMCSF	-0.124	-0.129
IFNab	0.556	0.257
IFNg	0.676	-0.069
IFNg_GMCSF1	0.179	0.481
Rv1432_day32	0.911	0.45
Rv1565c_day32	0.199	0.191
secA2_input	-1.766	-0.792
delta_Rv3594	0.734	0.187
delta_Rv3717	-0.274	0.264
delta_Rv3811	0.819	-0.091
delta_Rv0954	0.017	-0.084
PonA1	-0.375	-0.494
EccD1_KO	-0.747	0.155
EspI_KO	-0.191	0.388
PE35_KO	1.219	-0.041
PPE68_KO	1.245	0.09
glycerol2	0.287	0.364
lignocerate	0.18	0.416
oleate	0.79	0.279
phosphatidylcholine	0.753	0.343
acetate	-0.166	-0.047
glucAc	-0.53	0.434
Rv0950ko	0.084	0.0
Rv1096ko	0.166	-0.256
Rv3684ko	-1.389	-0.576
delta_otsA_trehalose	0.099	-0.934