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 Rv1962A/vapB35

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

	Rv1398c/vapB10	Rv1962A/vapB35
Fe_supp_jason_reseq	-0.834	-2.087
low_pH_jason_reseq	-0.773	0.751
NO_jason_reseq	-0.189	-1.016
B6_jason_reseq	-1.519	-1.721
MHCII_jason_reseq	0.368	-1.617
Isoniazid02	0.976	2.993
Rifampicin4	-1.018	0.249
Ethambutol3	1.727	2.526
Meropenem3	-0.223	0.248
Vancomycin16	-0.305	0.716
Rv2680_day32	-0.968	1.845
H37Rv_KO_MarP	-0.59	-0.189
hypoxia_3wks	0.622	0.116
hypoxia_6wks	-1.006	0.031
glycerol	1.81	0.0
cholesterol	0.282	0.461
AJ	-0.373	-0.126
Bibs02	0.083	0.032
Bibs02c	0.638	-1.338
BL6	1.081	1.12
BL6a	0.763	-0.145
BXD01	0.968	1.863
BXD010	0.777	0.637
BXD011	-0.125	1.169
BXD03	0.847	1.383
BXD04	0.663	-0.267
BXD05	-0.159	0.594
BXD06	0.061	1.383
BXD07	0.93	0.953
BXD08	1.599	2.545
BXD09	0.359	1.258
CAST	0.085	-0.706
CCcont	0.833	0.855
DS01	1.266	1.042
DS02	-0.654	-1.32
DS04	1.114	-0.461
DS0c	1.315	0.255
GP01	-1.062	1.804
GP02	0.618	0.565
GP0c	0.768	1.454
NOD	2.298	1.705
NZO	-0.808	-2.362
PWK	-0.449	-0.51
H37Rv_KO_CtpC	1.43	0.43
H37Rv_KO_CtpD	1.668	2.829
H37Rv_KO_Rv1272	1.593	1.058
H37Rv_KO_SugABC	-1.297	0.46
H37Rv_KO_MbtN	-1.419	-0.34
Trans05	0.529	2.557
macrophage_unactivated	0.799	0.051
IL1	0.575	-1.109
Rapamycin	0.534	-1.746
Tcell	2.281	1.838
GMCSF	-0.124	-0.882
IFNab	0.556	-0.665
IFNg	0.676	-0.259
IFNg_GMCSF1	0.179	0.333
Rv1432_day32	0.911	-0.488
Rv1565c_day32	0.199	-0.177
secA2_input	-1.766	-1.324
delta_Rv3594	0.734	0.575
delta_Rv3717	-0.274	-0.272
delta_Rv3811	0.819	0.458
delta_Rv0954	0.017	-0.293
PonA1	-0.375	0.434
EccD1_KO	-0.747	2.174
EspI_KO	-0.191	1.437
PE35_KO	1.219	2.896
PPE68_KO	1.245	2.377
glycerol2	0.287	0.113
lignocerate	0.18	-0.946
oleate	0.79	1.197
phosphatidylcholine	0.753	0.203
acetate	-0.166	-0.893
glucAc	-0.53	-1.917
Rv0950ko	0.084	-0.546
Rv1096ko	0.166	0.377
Rv3684ko	-1.389	-0.593
delta_otsA_trehalose	0.099	0.654