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 Rv2514c/-:

update plot	correlation	link to info on gene
Rv0908/ctpE	(cc=0.5109)	info on Rv0908/ctpE
Rv3428c/-	(cc=0.4208)	info on Rv3428c/-
Rv2318/uspC	(cc=0.4034)	info on Rv2318/uspC
Rv1728c/-	(cc=0.3909)	info on Rv1728c/-
Rv2853/PE_PGRS48	(cc=0.3819)	info on Rv2853/PE_PGRS48
Rv1469/ctpD	(cc=0.3815)	info on Rv1469/ctpD
Rv1377c/-	(cc=0.3761)	info on Rv1377c/-
Rv1772/-	(cc=0.3741)	info on Rv1772/-
Rv0253/nirD	(cc=0.3727)	info on Rv0253/nirD
Rv3912/-	(cc=0.3671)	info on Rv3912/-

Correlation of Rv2514c/- with Rv1728c/-

Normalized LFCs for Rv2514c/-:
(description and provenance of datasets)

	Rv2514c/-	Rv1728c/-
Fe_supp_jason_reseq	-0.766	-0.292
low_pH_jason_reseq	-0.567	-1.302
NO_jason_reseq	-1.126	0.431
B6_jason_reseq	-1.953	-0.649
MHCII_jason_reseq	-2.841	-0.423
Isoniazid02	0.1	-0.227
Rifampicin4	-0.097	0.114
Ethambutol3	-0.49	0.546
Meropenem3	-0.201	-0.038
Vancomycin16	-0.096	-0.029
Rv2680_day32	-0.518	-0.354
H37Rv_KO_MarP	0.931	-0.148
hypoxia_3wks	-0.989	-0.108
hypoxia_6wks	-1.384	-0.029
glycerol	0.465	-0.274
cholesterol	-0.751	-0.274
AJ	0.698	-0.064
Bibs02	-0.616	-0.211
Bibs02c	-0.199	0.399
BL6	-0.058	-0.082
BL6a	-0.667	0.088
BXD01	0.058	0.228
BXD010	0.094	-0.035
BXD011	0.093	-0.434
BXD03	0.099	-1.493
BXD04	-0.581	-0.034
BXD05	-0.767	0.277
BXD06	-0.219	0.012
BXD07	-0.826	-0.174
BXD08	-1.205	-0.613
BXD09	-0.876	-0.093
CAST	-0.257	-0.022
CCcont	-0.272	-0.49
DS01	-1.167	-0.69
DS02	-0.318	-0.583
DS04	-1.055	0.441
DS0c	-0.776	0.429
GP01	0.808	-0.124
GP02	-0.955	0.427
GP0c	-0.284	-0.288
NOD	3.419	2.021
NZO	0.666	-0.131
PWK	0.475	0.155
H37Rv_KO_CtpC	-0.101	-0.342
H37Rv_KO_CtpD	-1.64	0.494
H37Rv_KO_Rv1272	-0.206	0.486
H37Rv_KO_SugABC	0.228	0.481
H37Rv_KO_MbtN	0.699	-0.391
Trans05	1.174	0.982
macrophage_unactivated	-1.174	-0.83
IL1	-0.409	-0.611
Rapamycin	-0.135	-0.632
Tcell	-0.45	-0.215
GMCSF	0.539	-0.544
IFNab	-0.562	-0.568
IFNg	0.115	-0.601
IFNg_GMCSF1	-0.666	0.198
Rv1432_day32	1.009	0.584
Rv1565c_day32	0.637	0.889
secA2_input	-1.821	-0.695
delta_Rv3594	-0.757	0.358
delta_Rv3717	-0.427	-0.279
delta_Rv3811	-0.143	0.266
delta_Rv0954	-0.224	0.65
PonA1	1.057	0.054
EccD1_KO	-0.684	-0.51
EspI_KO	-0.188	-0.528
PE35_KO	0.123	-0.158
PPE68_KO	-0.285	-0.173
glycerol2	-1.321	0.0
lignocerate	-0.072	0.056
oleate	-1.874	0.457
phosphatidylcholine	0.434	0.148
acetate	0.515	0.126
glucAc	1.202	-0.084
Rv0950ko	2.081	0.175
Rv1096ko	1.276	0.663
Rv3684ko	2.26	0.419
delta_otsA_trehalose	-0.751	-0.437