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 Rv2820c/-:

update plot	correlation	link to info on gene
Rv1706c/PPE23	(cc=0.5043)	info on Rv1706c/PPE23
Rv2059/-	(cc=0.4941)	info on Rv2059/-
Rv1632c/-	(cc=0.4885)	info on Rv1632c/-
Rv2629/-	(cc=0.4749)	info on Rv2629/-
Rv1290c/-	(cc=0.4675)	info on Rv1290c/-
Rv3136A/-	(cc=0.4647)	info on Rv3136A/-
Rv2505c/fadD35	(cc=0.4578)	info on Rv2505c/fadD35
Rv0257/-	(cc=0.4502)	info on Rv0257/-
Rv0959/-	(cc=0.445)	info on Rv0959/-
Rv1123c/bpoB	(cc=0.4353)	info on Rv1123c/bpoB

Correlation of Rv2820c/- with Rv1290c/-

Normalized LFCs for Rv2820c/-:
(description and provenance of datasets)

	Rv2820c/-	Rv1290c/-
Fe_supp_jason_reseq	0.633	0.044
low_pH_jason_reseq	0.42	-0.639
NO_jason_reseq	0.257	0.016
B6_jason_reseq	0.456	-0.063
MHCII_jason_reseq	-0.014	0.286
Isoniazid02	1.772	1.887
Rifampicin4	0.076	0.23
Ethambutol3	2.23	1.818
Meropenem3	-0.125	0.395
Vancomycin16	0.496	0.454
Rv2680_day32	-0.012	0.279
H37Rv_KO_MarP	-0.474	0.216
hypoxia_3wks	0.419	0.0
hypoxia_6wks	-0.021	-0.069
glycerol	-0.162	-0.007
cholesterol	-0.597	0.327
AJ	0.173	0.35
Bibs02	0.518	-0.174
Bibs02c	-0.447	0.167
BL6	0.324	0.291
BL6a	-0.443	0.143
BXD01	-0.021	0.218
BXD010	-1.021	-0.025
BXD011	-0.124	-0.01
BXD03	-0.869	0.381
BXD04	0.019	0.473
BXD05	-0.494	0.0
BXD06	-0.064	0.145
BXD07	-0.207	0.361
BXD08	-0.164	0.111
BXD09	-0.579	0.022
CAST	0.035	0.33
CCcont	-0.12	-0.072
DS01	0.496	0.0
DS02	0.21	-0.178
DS04	-0.124	-0.103
DS0c	0.299	0.083
GP01	1.296	0.544
GP02	0.441	0.278
GP0c	0.443	0.243
NOD	0.052	0.7
NZO	-0.078	0.406
PWK	0.624	0.142
H37Rv_KO_CtpC	0.479	0.182
H37Rv_KO_CtpD	-0.123	-0.44
H37Rv_KO_Rv1272	0.63	-0.235
H37Rv_KO_SugABC	1.068	0.418
H37Rv_KO_MbtN	-0.1	-0.037
Trans05	-0.243	0.569
macrophage_unactivated	0.739	-0.328
IL1	0.694	0.033
Rapamycin	-0.43	-0.19
Tcell	0.688	0.482
GMCSF	0.034	-0.074
IFNab	-0.514	-0.26
IFNg	0.107	0.016
IFNg_GMCSF1	0.804	-0.035
Rv1432_day32	0.755	0.056
Rv1565c_day32	0.403	-0.204
secA2_input	-0.279	0.111
delta_Rv3594	0.171	0.132
delta_Rv3717	-0.067	-0.104
delta_Rv3811	-0.098	-0.135
delta_Rv0954	0.207	0.724
PonA1	0.224	-0.237
EccD1_KO	0.756	0.296
EspI_KO	1.309	0.234
PE35_KO	0.939	0.467
PPE68_KO	1.238	0.448
glycerol2	0.425	0.324
lignocerate	-0.032	0.424
oleate	0.543	0.383
phosphatidylcholine	0.245	0.681
acetate	-0.346	0.1
glucAc	-0.136	-0.022
Rv0950ko	0.389	-0.036
Rv1096ko	-0.16	-0.036
Rv3684ko	0.0	-0.187
delta_otsA_trehalose	-0.451	-0.314