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 Rv3912/-

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

	Rv2514c/-	Rv3912/-
Fe_supp_jason_reseq	-0.766	-0.949
low_pH_jason_reseq	-0.567	-1.005
NO_jason_reseq	-1.126	-0.633
B6_jason_reseq	-1.953	-1.648
MHCII_jason_reseq	-2.841	-1.793
Isoniazid02	0.1	0.146
Rifampicin4	-0.097	-0.91
Ethambutol3	-0.49	1.251
Meropenem3	-0.201	-0.317
Vancomycin16	-0.096	-0.419
Rv2680_day32	-0.518	0.091
H37Rv_KO_MarP	0.931	-0.09
hypoxia_3wks	-0.989	-0.287
hypoxia_6wks	-1.384	-0.739
glycerol	0.465	0.535
cholesterol	-0.751	0.106
AJ	0.698	0.378
Bibs02	-0.616	-0.752
Bibs02c	-0.199	0.249
BL6	-0.058	-0.032
BL6a	-0.667	0.258
BXD01	0.058	0.371
BXD010	0.094	0.094
BXD011	0.093	-0.432
BXD03	0.099	0.291
BXD04	-0.581	-0.58
BXD05	-0.767	0.507
BXD06	-0.219	0.081
BXD07	-0.826	0.226
BXD08	-1.205	0.3
BXD09	-0.876	-0.337
CAST	-0.257	0.611
CCcont	-0.272	0.367
DS01	-1.167	0.46
DS02	-0.318	0.235
DS04	-1.055	-0.527
DS0c	-0.776	0.72
GP01	0.808	1.28
GP02	-0.955	0.02
GP0c	-0.284	0.64
NOD	3.419	0.46
NZO	0.666	-0.296
PWK	0.475	1.32
H37Rv_KO_CtpC	-0.101	0.099
H37Rv_KO_CtpD	-1.64	0.844
H37Rv_KO_Rv1272	-0.206	-0.189
H37Rv_KO_SugABC	0.228	0.931
H37Rv_KO_MbtN	0.699	1.098
Trans05	1.174	0.334
macrophage_unactivated	-1.174	-0.341
IL1	-0.409	-0.489
Rapamycin	-0.135	0.08
Tcell	-0.45	-0.215
GMCSF	0.539	0.602
IFNab	-0.562	0.623
IFNg	0.115	-0.984
IFNg_GMCSF1	-0.666	0.39
Rv1432_day32	1.009	0.055
Rv1565c_day32	0.637	-0.629
secA2_input	-1.821	0.324
delta_Rv3594	-0.757	0.02
delta_Rv3717	-0.427	0.493
delta_Rv3811	-0.143	0.714
delta_Rv0954	-0.224	0.342
PonA1	1.057	-0.194
EccD1_KO	-0.684	0.056
EspI_KO	-0.188	-0.334
PE35_KO	0.123	-0.595
PPE68_KO	-0.285	-0.496
glycerol2	-1.321	-0.813
lignocerate	-0.072	-0.595
oleate	-1.874	-0.605
phosphatidylcholine	0.434	-0.852
acetate	0.515	-0.219
glucAc	1.202	-0.076
Rv0950ko	2.081	0.277
Rv1096ko	1.276	0.344
Rv3684ko	2.26	0.815
delta_otsA_trehalose	-0.751	-0.85