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 Rv0376c/-

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

	Rv0585c/-	Rv0376c/-
Fe_supp_jason_reseq	-0.751	-0.63
low_pH_jason_reseq	-0.564	-1.325
NO_jason_reseq	0.268	-0.795
B6_jason_reseq	-0.6	-0.028
MHCII_jason_reseq	0.361	-0.012
Isoniazid02	0.242	-0.518
Rifampicin4	0.187	0.208
Ethambutol3	-0.044	-0.411
Meropenem3	1.24	0.008
Vancomycin16	0.183	-0.175
Rv2680_day32	-0.345	-0.134
H37Rv_KO_MarP	0.501	0.415
hypoxia_3wks	0.307	-0.223
hypoxia_6wks	0.033	0.524
glycerol	0.157	0.607
cholesterol	0.431	0.238
AJ	0.461	0.481
Bibs02	0.576	0.706
Bibs02c	0.117	0.252
BL6	0.496	0.311
BL6a	0.43	-0.139
BXD01	-0.338	-0.309
BXD010	0.179	-0.717
BXD011	-0.03	-0.695
BXD03	0.216	-0.49
BXD04	-0.073	-0.39
BXD05	0.524	0.655
BXD06	0.045	-0.868
BXD07	0.207	-0.735
BXD08	0.045	-0.706
BXD09	0.196	-0.982
CAST	0.128	0.242
CCcont	-0.366	-0.752
DS01	0.936	0.828
DS02	0.775	1.15
DS04	0.252	-0.32
DS0c	0.79	0.812
GP01	0.0	0.081
GP02	-0.612	-0.097
GP0c	0.194	-0.41
NOD	-0.216	0.418
NZO	-0.094	-0.432
PWK	0.48	-0.102
H37Rv_KO_CtpC	0.16	-0.352
H37Rv_KO_CtpD	0.722	-0.691
H37Rv_KO_Rv1272	1.153	-0.81
H37Rv_KO_SugABC	-0.272	-1.064
H37Rv_KO_MbtN	0.567	-0.756
Trans05	0.344	0.167
macrophage_unactivated	-0.076	-1.234
IL1	0.368	-0.632
Rapamycin	0.175	-0.786
Tcell	-0.567	-0.495
GMCSF	-0.095	-0.454
IFNab	-0.181	-1.327
IFNg	0.094	-0.684
IFNg_GMCSF1	0.39	-1.084
Rv1432_day32	0.456	-0.481
Rv1565c_day32	0.6	0.676
secA2_input	0.277	1.061
delta_Rv3594	-0.289	-0.159
delta_Rv3717	0.424	0.292
delta_Rv3811	0.18	0.449
delta_Rv0954	0.382	0.425
PonA1	0.779	1.338
EccD1_KO	0.0	-0.947
EspI_KO	0.502	-0.097
PE35_KO	-0.254	-0.382
PPE68_KO	0.0	-0.419
glycerol2	-0.446	0.395
lignocerate	-0.021	0.958
oleate	-0.51	0.432
phosphatidylcholine	-0.146	0.64
acetate	-0.392	0.826
glucAc	0.627	0.974
Rv0950ko	-0.063	1.505
Rv1096ko	1.526	1.972
Rv3684ko	0.639	2.06
delta_otsA_trehalose	-0.222	-1.522