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 Rv0532/PE_PGRS6

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

	Rv3370c/dnaE2	Rv0532/PE_PGRS6
Fe_supp_jason_reseq	-0.33	-0.549
low_pH_jason_reseq	0.353	-0.708
NO_jason_reseq	0.042	-0.029
B6_jason_reseq	-0.83	-0.538
MHCII_jason_reseq	0.062	1.151
Isoniazid02	1.292	3.355
Rifampicin4	0.441	0.988
Ethambutol3	2.253	2.926
Meropenem3	1.745	0.242
Vancomycin16	0.276	0.926
Rv2680_day32	-0.442	-0.23
H37Rv_KO_MarP	0.721	0.095
hypoxia_3wks	-0.299	-0.163
hypoxia_6wks	-0.731	-0.355
glycerol	0.6	0.162
cholesterol	0.322	0.145
AJ	0.328	0.165
Bibs02	-0.517	0.268
Bibs02c	-0.211	0.505
BL6	0.25	-0.013
BL6a	-0.112	0.234
BXD01	0.168	0.0
BXD010	0.313	-0.478
BXD011	-0.383	-0.494
BXD03	0.315	-0.149
BXD04	0.302	0.225
BXD05	0.442	-0.296
BXD06	-0.24	-0.028
BXD07	-0.038	0.215
BXD08	-0.018	0.653
BXD09	0.181	-0.138
CAST	0.325	0.095
CCcont	0.119	0.076
DS01	-0.625	0.19
DS02	0.145	0.578
DS04	0.027	0.578
DS0c	-0.574	1.065
GP01	0.585	0.362
GP02	0.426	-0.841
GP0c	0.598	-0.041
NOD	-0.194	-0.583
NZO	0.42	0.514
PWK	-0.519	-0.617
H37Rv_KO_CtpC	0.581	0.352
H37Rv_KO_CtpD	0.267	-0.654
H37Rv_KO_Rv1272	0.344	-0.405
H37Rv_KO_SugABC	0.231	-0.415
H37Rv_KO_MbtN	-0.136	-0.022
Trans05	0.416	0.041
macrophage_unactivated	0.0	0.644
IL1	-0.151	0.572
Rapamycin	0.049	0.344
Tcell	0.052	-0.349
GMCSF	1.03	0.356
IFNab	-0.154	-0.039
IFNg	-0.275	0.484
IFNg_GMCSF1	0.852	0.314
Rv1432_day32	0.038	0.0
Rv1565c_day32	-0.371	-0.422
secA2_input	0.207	-0.474
delta_Rv3594	0.211	0.47
delta_Rv3717	-0.023	0.301
delta_Rv3811	0.3	0.076
delta_Rv0954	0.156	-0.437
PonA1	0.196	0.036
EccD1_KO	0.214	-0.296
EspI_KO	-0.145	-0.593
PE35_KO	0.327	-0.233
PPE68_KO	0.688	-0.221
glycerol2	0.177	-0.025
lignocerate	0.313	0.374
oleate	0.364	-1.087
phosphatidylcholine	0.293	0.531
acetate	0.238	0.607
glucAc	-0.02	0.769
Rv0950ko	0.567	0.202
Rv1096ko	1.155	0.235
Rv3684ko	0.563	0.36
delta_otsA_trehalose	-0.321	-0.756