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 Rv0118c/oxcA:

update plot	correlation	link to info on gene
Rv3664c/dppC	(cc=0.4214)	info on Rv3664c/dppC
Rv1351/-	(cc=0.4024)	info on Rv1351/-
Rv3468c/-	(cc=0.3966)	info on Rv3468c/-
Rv1708/-	(cc=0.3907)	info on Rv1708/-
Rv1187/rocA	(cc=0.3741)	info on Rv1187/rocA
Rv2765/-	(cc=0.3693)	info on Rv2765/-
Rv0452/-	(cc=0.3681)	info on Rv0452/-
Rv0984/moaB2	(cc=0.3567)	info on Rv0984/moaB2
Rv0488/-	(cc=0.3542)	info on Rv0488/-
Rv2007c/fdxA	(cc=0.3536)	info on Rv2007c/fdxA

Correlation of Rv0118c/oxcA with Rv0488/-

Normalized LFCs for Rv0118c/oxcA:
(description and provenance of datasets)

	Rv0118c/oxcA	Rv0488/-
Fe_supp_jason_reseq	0.998	0.414
low_pH_jason_reseq	-0.062	-0.013
NO_jason_reseq	0.53	-0.323
B6_jason_reseq	1.576	0.749
MHCII_jason_reseq	0.524	0.793
Isoniazid02	0.221	-1.829
Rifampicin4	0.0	0.257
Ethambutol3	-0.08	-1.35
Meropenem3	0.25	-1.118
Vancomycin16	0.48	-0.586
Rv2680_day32	1.467	0.82
H37Rv_KO_MarP	0.351	0.219
hypoxia_3wks	-0.782	-1.244
hypoxia_6wks	0.566	0.123
glycerol	0.228	-1.166
cholesterol	0.239	-0.197
AJ	-0.255	0.756
Bibs02	1.469	0.636
Bibs02c	-0.781	0.855
BL6	0.943	-0.052
BL6a	0.029	0.05
BXD01	-0.08	-0.416
BXD010	0.504	0.746
BXD011	-0.448	-0.347
BXD03	0.189	0.368
BXD04	0.266	-0.915
BXD05	-0.391	-0.122
BXD06	0.895	-0.007
BXD07	-0.063	0.014
BXD08	-0.31	-0.53
BXD09	0.25	-0.44
CAST	0.859	0.617
CCcont	-0.092	-0.265
DS01	0.78	1.574
DS02	0.359	1.241
DS04	1.751	0.966
DS0c	0.467	1.381
GP01	-1.461	-0.827
GP02	-0.013	-0.615
GP0c	-0.122	-0.547
NOD	-0.524	-0.687
NZO	-0.288	-0.116
PWK	0.374	-0.02
H37Rv_KO_CtpC	-0.179	0.016
H37Rv_KO_CtpD	-0.918	0.379
H37Rv_KO_Rv1272	0.795	0.963
H37Rv_KO_SugABC	0.532	0.226
H37Rv_KO_MbtN	0.762	0.741
Trans05	-0.166	-0.391
macrophage_unactivated	0.069	-0.489
IL1	-0.715	-1.771
Rapamycin	0.199	-1.071
Tcell	0.212	-0.593
GMCSF	0.116	-0.605
IFNab	0.323	0.073
IFNg	-0.182	-0.69
IFNg_GMCSF1	-0.594	0.368
Rv1432_day32	0.048	0.438
Rv1565c_day32	0.513	0.035
secA2_input	0.229	-0.099
delta_Rv3594	0.173	0.355
delta_Rv3717	0.073	-0.279
delta_Rv3811	0.607	0.067
delta_Rv0954	0.556	0.039
PonA1	-0.56	-0.32
EccD1_KO	0.24	0.247
EspI_KO	0.14	1.223
PE35_KO	0.543	0.315
PPE68_KO	0.307	0.285
glycerol2	0.289	1.883
lignocerate	0.446	2.04
oleate	-0.696	0.608
phosphatidylcholine	0.0	1.756
acetate	0.608	2.287
glucAc	0.898	1.932
Rv0950ko	-0.323	0.745
Rv1096ko	0.513	-0.507
Rv3684ko	0.986	-0.406
delta_otsA_trehalose	1.766	0.152