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 Rv0452/-

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

	Rv0118c/oxcA	Rv0452/-
Fe_supp_jason_reseq	0.998	0.204
low_pH_jason_reseq	-0.062	1.211
NO_jason_reseq	0.53	-1.05
B6_jason_reseq	1.576	1.094
MHCII_jason_reseq	0.524	1.146
Isoniazid02	0.221	0.0
Rifampicin4	0.0	-0.222
Ethambutol3	-0.08	-0.119
Meropenem3	0.25	-1.035
Vancomycin16	0.48	0.361
Rv2680_day32	1.467	0.095
H37Rv_KO_MarP	0.351	0.24
hypoxia_3wks	-0.782	0.546
hypoxia_6wks	0.566	1.395
glycerol	0.228	0.622
cholesterol	0.239	0.265
AJ	-0.255	-0.319
Bibs02	1.469	0.595
Bibs02c	-0.781	0.724
BL6	0.943	0.298
BL6a	0.029	-0.23
BXD01	-0.08	-0.223
BXD010	0.504	-0.698
BXD011	-0.448	-1.889
BXD03	0.189	-1.211
BXD04	0.266	-1.149
BXD05	-0.391	-0.87
BXD06	0.895	-0.999
BXD07	-0.063	-0.732
BXD08	-0.31	-0.694
BXD09	0.25	-0.264
CAST	0.859	-0.879
CCcont	-0.092	-0.247
DS01	0.78	1.542
DS02	0.359	1.442
DS04	1.751	1.796
DS0c	0.467	1.023
GP01	-1.461	0.0
GP02	-0.013	0.473
GP0c	-0.122	-0.532
NOD	-0.524	-0.568
NZO	-0.288	-0.455
PWK	0.374	0.247
H37Rv_KO_CtpC	-0.179	-0.939
H37Rv_KO_CtpD	-0.918	-1.65
H37Rv_KO_Rv1272	0.795	-1.097
H37Rv_KO_SugABC	0.532	0.576
H37Rv_KO_MbtN	0.762	0.147
Trans05	-0.166	0.102
macrophage_unactivated	0.069	0.174
IL1	-0.715	-0.492
Rapamycin	0.199	-0.138
Tcell	0.212	-0.186
GMCSF	0.116	-0.607
IFNab	0.323	-0.033
IFNg	-0.182	-1.098
IFNg_GMCSF1	-0.594	-1.065
Rv1432_day32	0.048	1.421
Rv1565c_day32	0.513	2.044
secA2_input	0.229	0.224
delta_Rv3594	0.173	0.101
delta_Rv3717	0.073	-0.984
delta_Rv3811	0.607	-0.748
delta_Rv0954	0.556	-0.522
PonA1	-0.56	-1.435
EccD1_KO	0.24	0.592
EspI_KO	0.14	0.388
PE35_KO	0.543	-0.277
PPE68_KO	0.307	-0.022
glycerol2	0.289	-1.218
lignocerate	0.446	0.217
oleate	-0.696	-0.204
phosphatidylcholine	0.0	-0.819
acetate	0.608	1.137
glucAc	0.898	0.592
Rv0950ko	-0.323	-1.197
Rv1096ko	0.513	-0.534
Rv3684ko	0.986	-0.16
delta_otsA_trehalose	1.766	0.119