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 Rv0925c/-:

update plot	correlation	link to info on gene
Rv3291c/lrpA	(cc=0.536)	info on Rv3291c/lrpA
Rv0811c/-	(cc=0.4989)	info on Rv0811c/-
Rv3852/hns	(cc=0.4868)	info on Rv3852/hns
Rv3162c/-	(cc=0.4821)	info on Rv3162c/-
Rv1545/-	(cc=0.4746)	info on Rv1545/-
Rv3233c/-	(cc=0.4632)	info on Rv3233c/-
Rv3566c/nat	(cc=0.4545)	info on Rv3566c/nat
Rv1419/-	(cc=0.4473)	info on Rv1419/-
Rv0908/ctpE	(cc=0.446)	info on Rv0908/ctpE
Rv1125/-	(cc=0.4454)	info on Rv1125/-

Correlation of Rv0925c/- with Rv1125/-

Normalized LFCs for Rv0925c/-:
(description and provenance of datasets)

	Rv0925c/-	Rv1125/-
Fe_supp_jason_reseq	-0.339	-0.448
low_pH_jason_reseq	0.445	0.167
NO_jason_reseq	0.045	-0.428
B6_jason_reseq	0.55	0.929
MHCII_jason_reseq	-0.339	1.89
Isoniazid02	-1.323	-1.603
Rifampicin4	-0.06	0.43
Ethambutol3	-1.096	-1.75
Meropenem3	-1.051	-1.635
Vancomycin16	-0.692	-0.735
Rv2680_day32	0.141	-0.091
H37Rv_KO_MarP	0.514	0.879
hypoxia_3wks	-0.574	0.443
hypoxia_6wks	-0.365	0.34
glycerol	-0.696	1.055
cholesterol	-0.09	-0.345
AJ	-0.166	0.334
Bibs02	0.195	0.136
Bibs02c	0.062	0.659
BL6	0.686	0.832
BL6a	0.125	0.075
BXD01	0.082	0.274
BXD010	-0.529	-0.274
BXD011	-0.221	-0.272
BXD03	-0.22	-0.424
BXD04	-0.171	0.298
BXD05	-0.283	0.194
BXD06	-0.205	0.124
BXD07	-0.024	-0.296
BXD08	-0.272	0.214
BXD09	-0.451	-0.204
CAST	-0.153	-0.492
CCcont	-0.229	0.533
DS01	-0.051	1.369
DS02	0.29	0.685
DS04	0.153	0.214
DS0c	-0.126	1.328
GP01	-0.795	-0.284
GP02	-0.952	-0.635
GP0c	-0.942	-0.342
NOD	0.465	1.092
NZO	0.051	-0.678
PWK	0.661	-0.038
H37Rv_KO_CtpC	-1.017	-0.387
H37Rv_KO_CtpD	-0.548	-1.696
H37Rv_KO_Rv1272	0.965	0.444
H37Rv_KO_SugABC	0.709	-0.575
H37Rv_KO_MbtN	-0.018	-1.245
Trans05	0.512	0.049
macrophage_unactivated	0.167	0.0
IL1	-0.021	0.721
Rapamycin	-0.083	0.681
Tcell	-0.179	-1.248
GMCSF	0.259	1.281
IFNab	-0.541	0.142
IFNg	0.227	0.307
IFNg_GMCSF1	0.308	0.952
Rv1432_day32	-0.113	0.271
Rv1565c_day32	0.417	-0.398
secA2_input	0.473	-1.288
delta_Rv3594	-0.413	0.698
delta_Rv3717	-0.613	0.101
delta_Rv3811	-0.706	-0.403
delta_Rv0954	-0.178	0.053
PonA1	-0.105	0.0
EccD1_KO	0.408	1.411
EspI_KO	0.431	1.104
PE35_KO	0.84	1.129
PPE68_KO	0.595	0.813
glycerol2	-0.439	0.113
lignocerate	-0.028	0.704
oleate	-0.197	0.058
phosphatidylcholine	-0.399	0.625
acetate	-0.618	0.555
glucAc	-0.504	0.311
Rv0950ko	0.202	0.793
Rv1096ko	1.782	0.995
Rv3684ko	1.179	0.632
delta_otsA_trehalose	0.202	-0.147