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 Rv2573/-:

update plot	correlation	link to info on gene
Rv2484c/-	(cc=0.5177)	info on Rv2484c/-
Rv0889c/citA	(cc=0.5121)	info on Rv0889c/citA
Rv2983/-	(cc=0.493)	info on Rv2983/-
Rv1935c/echA13	(cc=0.4699)	info on Rv1935c/echA13
Rv2701c/suhB	(cc=0.4597)	info on Rv2701c/suhB
Rv1688/mpg	(cc=0.4578)	info on Rv1688/mpg
Rv3297/nei	(cc=0.4532)	info on Rv3297/nei
Rv3242c/-	(cc=0.4499)	info on Rv3242c/-
Rv1226c/-	(cc=0.4484)	info on Rv1226c/-
Rv2340c/PE_PGRS39	(cc=0.4453)	info on Rv2340c/PE_PGRS39

Correlation of Rv2573/- with Rv2484c/-

Normalized LFCs for Rv2573/-:
(description and provenance of datasets)

	Rv2573/-	Rv2484c/-
Fe_supp_jason_reseq	0.437	-0.219
low_pH_jason_reseq	-0.587	-0.897
NO_jason_reseq	0.541	0.488
B6_jason_reseq	0.424	0.555
MHCII_jason_reseq	-0.38	0.566
Isoniazid02	1.416	1.072
Rifampicin4	2.464	-0.46
Ethambutol3	2.094	2.559
Meropenem3	1.222	0.424
Vancomycin16	1.817	0.207
Rv2680_day32	-1.103	-0.358
H37Rv_KO_MarP	0.477	0.093
hypoxia_3wks	0.0	-0.044
hypoxia_6wks	-0.384	0.069
glycerol	-0.088	-0.298
cholesterol	0.153	0.171
AJ	0.808	0.218
Bibs02	0.642	-0.244
Bibs02c	0.13	-0.279
BL6	-0.065	-0.58
BL6a	-0.389	-0.689
BXD01	-0.184	-0.744
BXD010	-1.465	-0.494
BXD011	-1.873	-0.565
BXD03	0.744	-0.374
BXD04	-0.157	0.471
BXD05	0.817	-0.1
BXD06	-1.209	-0.579
BXD07	0.62	0.172
BXD08	-0.325	-0.063
BXD09	-0.503	-0.413
CAST	0.966	0.217
CCcont	0.191	-1.236
DS01	-0.145	-0.245
DS02	0.099	-0.51
DS04	0.181	0.444
DS0c	-0.46	-0.116
GP01	0.212	-0.972
GP02	2.271	0.48
GP0c	-0.332	-0.899
NOD	0.314	-0.044
NZO	0.179	-0.325
PWK	0.252	0.266
H37Rv_KO_CtpC	-3.353	-0.966
H37Rv_KO_CtpD	0.214	-0.601
H37Rv_KO_Rv1272	-0.857	-0.683
H37Rv_KO_SugABC	0.077	-0.192
H37Rv_KO_MbtN	-0.833	-1.086
Trans05	-0.794	-0.689
macrophage_unactivated	-0.24	-1.332
IL1	-0.261	-0.457
Rapamycin	-0.97	-0.657
Tcell	-0.632	-0.697
GMCSF	-1.228	-1.077
IFNab	0.018	-0.538
IFNg	-1.0	-0.056
IFNg_GMCSF1	0.327	-0.635
Rv1432_day32	0.111	0.392
Rv1565c_day32	-0.577	-0.256
secA2_input	0.127	0.232
delta_Rv3594	-0.379	-0.288
delta_Rv3717	-0.312	-0.237
delta_Rv3811	-0.471	-0.706
delta_Rv0954	0.172	0.37
PonA1	-0.169	-0.171
EccD1_KO	-0.092	0.878
EspI_KO	-0.217	0.06
PE35_KO	1.604	1.476
PPE68_KO	0.586	1.427
glycerol2	-1.669	-1.687
lignocerate	-0.912	-0.616
oleate	-1.382	1.212
phosphatidylcholine	-1.458	-0.053
acetate	-1.087	-1.257
glucAc	-0.731	-2.19
Rv0950ko	-0.148	0.38
Rv1096ko	0.03	1.152
Rv3684ko	0.809	1.867
delta_otsA_trehalose	-0.53	-0.16