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 Rv3370c/dnaE2:

update plot	correlation	link to info on gene
Rv1065/-	(cc=0.5386)	info on Rv1065/-
Rv3585/radA	(cc=0.5088)	info on Rv3585/radA
Rv1290c/-	(cc=0.4867)	info on Rv1290c/-
Rv0976c/-	(cc=0.4842)	info on Rv0976c/-
Rv1791/PE19	(cc=0.4656)	info on Rv1791/PE19
Rv3866/espG1	(cc=0.4499)	info on Rv3866/espG1
Rv3174/-	(cc=0.4466)	info on Rv3174/-
Rv0532/PE_PGRS6	(cc=0.4446)	info on Rv0532/PE_PGRS6
Rv1785c/cyp143	(cc=0.4438)	info on Rv1785c/cyp143
Rv0869c/moaA2	(cc=0.4386)	info on Rv0869c/moaA2

Correlation of Rv3370c/dnaE2 with Rv1290c/-

Normalized LFCs for Rv3370c/dnaE2:
(description and provenance of datasets)

	Rv3370c/dnaE2	Rv1290c/-
Fe_supp_jason_reseq	-0.33	0.044
low_pH_jason_reseq	0.353	-0.639
NO_jason_reseq	0.042	0.016
B6_jason_reseq	-0.83	-0.063
MHCII_jason_reseq	0.062	0.286
Isoniazid02	1.292	1.887
Rifampicin4	0.441	0.23
Ethambutol3	2.253	1.818
Meropenem3	1.745	0.395
Vancomycin16	0.276	0.454
Rv2680_day32	-0.442	0.279
H37Rv_KO_MarP	0.721	0.216
hypoxia_3wks	-0.299	0.0
hypoxia_6wks	-0.731	-0.069
glycerol	0.6	-0.007
cholesterol	0.322	0.327
AJ	0.328	0.35
Bibs02	-0.517	-0.174
Bibs02c	-0.211	0.167
BL6	0.25	0.291
BL6a	-0.112	0.143
BXD01	0.168	0.218
BXD010	0.313	-0.025
BXD011	-0.383	-0.01
BXD03	0.315	0.381
BXD04	0.302	0.473
BXD05	0.442	0.0
BXD06	-0.24	0.145
BXD07	-0.038	0.361
BXD08	-0.018	0.111
BXD09	0.181	0.022
CAST	0.325	0.33
CCcont	0.119	-0.072
DS01	-0.625	0.0
DS02	0.145	-0.178
DS04	0.027	-0.103
DS0c	-0.574	0.083
GP01	0.585	0.544
GP02	0.426	0.278
GP0c	0.598	0.243
NOD	-0.194	0.7
NZO	0.42	0.406
PWK	-0.519	0.142
H37Rv_KO_CtpC	0.581	0.182
H37Rv_KO_CtpD	0.267	-0.44
H37Rv_KO_Rv1272	0.344	-0.235
H37Rv_KO_SugABC	0.231	0.418
H37Rv_KO_MbtN	-0.136	-0.037
Trans05	0.416	0.569
macrophage_unactivated	0.0	-0.328
IL1	-0.151	0.033
Rapamycin	0.049	-0.19
Tcell	0.052	0.482
GMCSF	1.03	-0.074
IFNab	-0.154	-0.26
IFNg	-0.275	0.016
IFNg_GMCSF1	0.852	-0.035
Rv1432_day32	0.038	0.056
Rv1565c_day32	-0.371	-0.204
secA2_input	0.207	0.111
delta_Rv3594	0.211	0.132
delta_Rv3717	-0.023	-0.104
delta_Rv3811	0.3	-0.135
delta_Rv0954	0.156	0.724
PonA1	0.196	-0.237
EccD1_KO	0.214	0.296
EspI_KO	-0.145	0.234
PE35_KO	0.327	0.467
PPE68_KO	0.688	0.448
glycerol2	0.177	0.324
lignocerate	0.313	0.424
oleate	0.364	0.383
phosphatidylcholine	0.293	0.681
acetate	0.238	0.1
glucAc	-0.02	-0.022
Rv0950ko	0.567	-0.036
Rv1096ko	1.155	-0.036
Rv3684ko	0.563	-0.187
delta_otsA_trehalose	-0.321	-0.314