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 Rv0420c/-:

update plot	correlation	link to info on gene
Rv1924c/-	(cc=0.4664)	info on Rv1924c/-
Rv3191c/-	(cc=0.4489)	info on Rv3191c/-
Rv0104/-	(cc=0.4414)	info on Rv0104/-
Rv3115/-	(cc=0.4365)	info on Rv3115/-
Rv2730/-	(cc=0.4344)	info on Rv2730/-
Rv1753c/PPE24	(cc=0.4343)	info on Rv1753c/PPE24
Rv3512/PE_PGRS56	(cc=0.4228)	info on Rv3512/PE_PGRS56
Rv3176c/mesT	(cc=0.4182)	info on Rv3176c/mesT
Rv3023c/-	(cc=0.4181)	info on Rv3023c/-
Rv3742c/-	(cc=0.4099)	info on Rv3742c/-

Correlation of Rv0420c/- with Rv1924c/-

Normalized LFCs for Rv0420c/-:
(description and provenance of datasets)

	Rv0420c/-	Rv1924c/-
Fe_supp_jason_reseq	-0.832	-1.916
low_pH_jason_reseq	-0.38	0.249
NO_jason_reseq	-0.911	1.373
B6_jason_reseq	0.155	1.172
MHCII_jason_reseq	-0.042	0.727
Isoniazid02	-0.611	-0.06
Rifampicin4	0.0	0.287
Ethambutol3	-0.421	0.083
Meropenem3	-0.491	0.904
Vancomycin16	-0.785	0.257
Rv2680_day32	-0.369	-0.359
H37Rv_KO_MarP	0.658	0.102
hypoxia_3wks	-0.447	-1.244
hypoxia_6wks	-0.234	-0.693
glycerol	-0.032	-0.345
cholesterol	0.424	-0.674
AJ	0.65	1.254
Bibs02	0.784	1.081
Bibs02c	-0.212	-0.371
BL6	-0.847	0.979
BL6a	-0.383	0.868
BXD01	-0.021	1.062
BXD010	0.42	1.025
BXD011	0.554	2.165
BXD03	0.202	0.856
BXD04	1.05	1.44
BXD05	0.473	1.857
BXD06	0.246	2.334
BXD07	0.917	1.717
BXD08	0.218	0.799
BXD09	0.461	1.228
CAST	0.36	0.455
CCcont	-0.219	-0.597
DS01	0.705	-0.079
DS02	0.384	-0.277
DS04	0.409	-0.319
DS0c	0.217	-0.85
GP01	0.814	1.024
GP02	-0.433	1.429
GP0c	0.787	1.462
NOD	0.018	1.469
NZO	0.312	1.662
PWK	0.767	2.461
H37Rv_KO_CtpC	1.068	0.461
H37Rv_KO_CtpD	-0.487	1.174
H37Rv_KO_Rv1272	0.835	-0.039
H37Rv_KO_SugABC	1.915	1.223
H37Rv_KO_MbtN	-0.016	0.553
Trans05	1.105	1.844
macrophage_unactivated	-1.323	-0.817
IL1	-0.228	0.403
Rapamycin	-0.098	0.037
Tcell	-0.14	0.424
GMCSF	0.137	-0.209
IFNab	0.157	0.508
IFNg	-0.422	-0.144
IFNg_GMCSF1	0.911	0.478
Rv1432_day32	0.164	3.186
Rv1565c_day32	-0.013	-0.559
secA2_input	-1.033	-1.047
delta_Rv3594	0.63	0.895
delta_Rv3717	-0.086	2.246
delta_Rv3811	1.053	0.604
delta_Rv0954	-0.017	-1.319
PonA1	0.854	-0.681
EccD1_KO	-0.414	-0.483
EspI_KO	-0.108	-0.861
PE35_KO	-0.222	-1.097
PPE68_KO	-0.122	-1.142
glycerol2	-0.44	0.441
lignocerate	0.538	1.701
oleate	-1.207	-1.182
phosphatidylcholine	-0.022	0.803
acetate	2.417	2.04
glucAc	0.492	2.173
Rv0950ko	-0.106	0.103
Rv1096ko	-0.431	0.268
Rv3684ko	0.272	1.415
delta_otsA_trehalose	1.229	2.452