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 Rv0585c/-:

update plot	correlation	link to info on gene
Rv0992c/-	(cc=0.535)	info on Rv0992c/-
Rv0578c/PE_PGRS7	(cc=0.4363)	info on Rv0578c/PE_PGRS7
Rv0039c/-	(cc=0.4173)	info on Rv0039c/-
Rv2012/-	(cc=0.4104)	info on Rv2012/-
Rv0435c/-	(cc=0.4043)	info on Rv0435c/-
Rv2495c/bkdC	(cc=0.3948)	info on Rv2495c/bkdC
Rv0409/ackA	(cc=0.3946)	info on Rv0409/ackA
Rv0418/lpqL	(cc=0.3904)	info on Rv0418/lpqL
Rv2963/-	(cc=0.3903)	info on Rv2963/-
Rv0376c/-	(cc=0.379)	info on Rv0376c/-

Correlation of Rv0585c/- with Rv0039c/-

Normalized LFCs for Rv0585c/-:
(description and provenance of datasets)

	Rv0585c/-	Rv0039c/-
Fe_supp_jason_reseq	-0.751	-1.939
low_pH_jason_reseq	-0.564	0.517
NO_jason_reseq	0.268	-0.42
B6_jason_reseq	-0.6	0.009
MHCII_jason_reseq	0.361	-0.134
Isoniazid02	0.242	0.304
Rifampicin4	0.187	0.945
Ethambutol3	-0.044	0.698
Meropenem3	1.24	0.429
Vancomycin16	0.183	1.504
Rv2680_day32	-0.345	-0.802
H37Rv_KO_MarP	0.501	-0.597
hypoxia_3wks	0.307	-0.502
hypoxia_6wks	0.033	0.0
glycerol	0.157	-0.638
cholesterol	0.431	-0.018
AJ	0.461	-0.331
Bibs02	0.576	0.264
Bibs02c	0.117	-0.097
BL6	0.496	-0.453
BL6a	0.43	-0.36
BXD01	-0.338	-0.834
BXD010	0.179	-0.384
BXD011	-0.03	-1.007
BXD03	0.216	-0.421
BXD04	-0.073	-0.243
BXD05	0.524	0.303
BXD06	0.045	-0.501
BXD07	0.207	0.077
BXD08	0.045	-0.341
BXD09	0.196	0.142
CAST	0.128	0.617
CCcont	-0.366	-0.359
DS01	0.936	1.545
DS02	0.775	0.562
DS04	0.252	1.789
DS0c	0.79	1.369
GP01	0.0	-1.496
GP02	-0.612	-2.318
GP0c	0.194	-1.132
NOD	-0.216	-0.576
NZO	-0.094	0.54
PWK	0.48	0.422
H37Rv_KO_CtpC	0.16	-0.254
H37Rv_KO_CtpD	0.722	0.667
H37Rv_KO_Rv1272	1.153	0.161
H37Rv_KO_SugABC	-0.272	0.705
H37Rv_KO_MbtN	0.567	-1.051
Trans05	0.344	-1.203
macrophage_unactivated	-0.076	-0.451
IL1	0.368	0.065
Rapamycin	0.175	0.887
Tcell	-0.567	-0.169
GMCSF	-0.095	0.713
IFNab	-0.181	-0.045
IFNg	0.094	0.107
IFNg_GMCSF1	0.39	0.377
Rv1432_day32	0.456	-0.164
Rv1565c_day32	0.6	0.0
secA2_input	0.277	-0.052
delta_Rv3594	-0.289	-1.103
delta_Rv3717	0.424	0.43
delta_Rv3811	0.18	0.296
delta_Rv0954	0.382	1.337
PonA1	0.779	0.322
EccD1_KO	0.0	0.553
EspI_KO	0.502	1.081
PE35_KO	-0.254	-0.554
PPE68_KO	0.0	0.515
glycerol2	-0.446	-0.719
lignocerate	-0.021	-0.096
oleate	-0.51	-0.357
phosphatidylcholine	-0.146	-0.896
acetate	-0.392	-0.746
glucAc	0.627	-0.52
Rv0950ko	-0.063	0.377
Rv1096ko	1.526	1.294
Rv3684ko	0.639	1.533
delta_otsA_trehalose	-0.222	1.756