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 Rv3698/-

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

	Rv1398c/vapB10	Rv3698/-
Fe_supp_jason_reseq	-0.834	0.286
low_pH_jason_reseq	-0.773	-0.489
NO_jason_reseq	-0.189	-1.173
B6_jason_reseq	-1.519	-0.324
MHCII_jason_reseq	0.368	1.101
Isoniazid02	0.976	-0.16
Rifampicin4	-1.018	-0.298
Ethambutol3	1.727	1.987
Meropenem3	-0.223	1.198
Vancomycin16	-0.305	0.111
Rv2680_day32	-0.968	0.204
H37Rv_KO_MarP	-0.59	0.871
hypoxia_3wks	0.622	0.383
hypoxia_6wks	-1.006	0.0
glycerol	1.81	0.312
cholesterol	0.282	0.146
AJ	-0.373	-0.183
Bibs02	0.083	-0.085
Bibs02c	0.638	0.323
BL6	1.081	0.303
BL6a	0.763	0.55
BXD01	0.968	0.924
BXD010	0.777	0.496
BXD011	-0.125	0.508
BXD03	0.847	0.989
BXD04	0.663	1.336
BXD05	-0.159	0.766
BXD06	0.061	0.37
BXD07	0.93	0.384
BXD08	1.599	1.061
BXD09	0.359	0.272
CAST	0.085	-0.502
CCcont	0.833	1.024
DS01	1.266	0.334
DS02	-0.654	0.096
DS04	1.114	0.299
DS0c	1.315	1.365
GP01	-1.062	0.297
GP02	0.618	0.764
GP0c	0.768	0.491
NOD	2.298	-0.329
NZO	-0.808	-0.672
PWK	-0.449	0.252
H37Rv_KO_CtpC	1.43	-0.325
H37Rv_KO_CtpD	1.668	0.366
H37Rv_KO_Rv1272	1.593	0.375
H37Rv_KO_SugABC	-1.297	0.374
H37Rv_KO_MbtN	-1.419	0.132
Trans05	0.529	0.408
macrophage_unactivated	0.799	2.149
IL1	0.575	-0.059
Rapamycin	0.534	0.976
Tcell	2.281	1.189
GMCSF	-0.124	0.053
IFNab	0.556	1.103
IFNg	0.676	0.722
IFNg_GMCSF1	0.179	0.528
Rv1432_day32	0.911	0.021
Rv1565c_day32	0.199	-0.283
secA2_input	-1.766	-0.163
delta_Rv3594	0.734	0.967
delta_Rv3717	-0.274	-0.191
delta_Rv3811	0.819	-0.138
delta_Rv0954	0.017	1.083
PonA1	-0.375	-0.043
EccD1_KO	-0.747	0.405
EspI_KO	-0.191	0.516
PE35_KO	1.219	0.461
PPE68_KO	1.245	0.653
glycerol2	0.287	0.042
lignocerate	0.18	0.239
oleate	0.79	0.333
phosphatidylcholine	0.753	0.434
acetate	-0.166	0.326
glucAc	-0.53	0.381
Rv0950ko	0.084	0.262
Rv1096ko	0.166	-0.139
Rv3684ko	-1.389	-0.717
delta_otsA_trehalose	0.099	-0.439