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 Rv2818c/-

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

	Rv1398c/vapB10	Rv2818c/-
Fe_supp_jason_reseq	-0.834	0.302
low_pH_jason_reseq	-0.773	0.102
NO_jason_reseq	-0.189	-0.213
B6_jason_reseq	-1.519	-0.127
MHCII_jason_reseq	0.368	0.454
Isoniazid02	0.976	-0.105
Rifampicin4	-1.018	-0.563
Ethambutol3	1.727	-0.157
Meropenem3	-0.223	0.02
Vancomycin16	-0.305	0.313
Rv2680_day32	-0.968	-0.316
H37Rv_KO_MarP	-0.59	-0.391
hypoxia_3wks	0.622	0.215
hypoxia_6wks	-1.006	0.403
glycerol	1.81	-0.363
cholesterol	0.282	-0.229
AJ	-0.373	0.084
Bibs02	0.083	0.098
Bibs02c	0.638	0.418
BL6	1.081	0.654
BL6a	0.763	1.184
BXD01	0.968	1.252
BXD010	0.777	1.154
BXD011	-0.125	1.407
BXD03	0.847	1.319
BXD04	0.663	1.015
BXD05	-0.159	1.503
BXD06	0.061	1.44
BXD07	0.93	1.573
BXD08	1.599	1.417
BXD09	0.359	1.177
CAST	0.085	0.596
CCcont	0.833	1.109
DS01	1.266	0.246
DS02	-0.654	0.367
DS04	1.114	0.786
DS0c	1.315	0.19
GP01	-1.062	0.802
GP02	0.618	0.227
GP0c	0.768	1.034
NOD	2.298	0.197
NZO	-0.808	-0.152
PWK	-0.449	-0.578
H37Rv_KO_CtpC	1.43	1.643
H37Rv_KO_CtpD	1.668	2.194
H37Rv_KO_Rv1272	1.593	1.215
H37Rv_KO_SugABC	-1.297	0.93
H37Rv_KO_MbtN	-1.419	0.158
Trans05	0.529	0.593
macrophage_unactivated	0.799	0.407
IL1	0.575	-0.11
Rapamycin	0.534	0.074
Tcell	2.281	0.381
GMCSF	-0.124	1.323
IFNab	0.556	0.251
IFNg	0.676	0.604
IFNg_GMCSF1	0.179	-0.277
Rv1432_day32	0.911	0.846
Rv1565c_day32	0.199	0.445
secA2_input	-1.766	-0.495
delta_Rv3594	0.734	1.175
delta_Rv3717	-0.274	0.828
delta_Rv3811	0.819	0.659
delta_Rv0954	0.017	0.028
PonA1	-0.375	0.824
EccD1_KO	-0.747	0.178
EspI_KO	-0.191	0.767
PE35_KO	1.219	1.561
PPE68_KO	1.245	1.872
glycerol2	0.287	-0.122
lignocerate	0.18	0.038
oleate	0.79	-0.03
phosphatidylcholine	0.753	0.262
acetate	-0.166	0.103
glucAc	-0.53	-0.101
Rv0950ko	0.084	-0.832
Rv1096ko	0.166	-0.501
Rv3684ko	-1.389	-1.071
delta_otsA_trehalose	0.099	0.459