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 Rv2274A/mazE8:

update plot	correlation	link to info on gene
Rv2275/-	(cc=0.7556)	info on Rv2275/-
Rv0845/-	(cc=0.5504)	info on Rv0845/-
Rv1397c/vapC10	(cc=0.5373)	info on Rv1397c/vapC10
Rv2137c/-	(cc=0.5213)	info on Rv2137c/-
Rv3398c/idsA1	(cc=0.5212)	info on Rv3398c/idsA1
Rv1729c/-	(cc=0.5188)	info on Rv1729c/-
Rv1507c/-	(cc=0.5139)	info on Rv1507c/-
Rv1521/fadD25	(cc=0.4752)	info on Rv1521/fadD25
Rv2496c/bkdB	(cc=0.4711)	info on Rv2496c/bkdB
Rv2527/vapC17	(cc=0.4648)	info on Rv2527/vapC17

Correlation of Rv2274A/mazE8 with Rv0845/-

Normalized LFCs for Rv2274A/mazE8:
(description and provenance of datasets)

	Rv2274A/mazE8	Rv0845/-
Fe_supp_jason_reseq	-1.073	-0.38
low_pH_jason_reseq	0.408	0.815
NO_jason_reseq	0.457	-0.41
B6_jason_reseq	-0.58	-0.712
MHCII_jason_reseq	-0.18	-1.227
Isoniazid02	0.377	0.972
Rifampicin4	1.083	-0.081
Ethambutol3	0.043	0.472
Meropenem3	0.238	-0.097
Vancomycin16	0.581	0.204
Rv2680_day32	0.359	-0.313
H37Rv_KO_MarP	0.26	0.141
hypoxia_3wks	-0.048	-0.088
hypoxia_6wks	0.048	-0.14
glycerol	-1.419	-0.767
cholesterol	-1.219	-0.413
AJ	0.382	0.0
Bibs02	2.072	0.947
Bibs02c	-2.099	0.226
BL6	0.275	-0.073
BL6a	0.765	0.426
BXD01	1.466	0.572
BXD010	0.109	0.861
BXD011	1.765	0.568
BXD03	0.769	0.445
BXD04	0.811	0.457
BXD05	1.881	-0.095
BXD06	0.952	0.223
BXD07	1.15	0.259
BXD08	2.183	0.392
BXD09	1.695	0.497
CAST	-1.246	0.537
CCcont	0.729	-0.035
DS01	1.018	0.349
DS02	1.827	-0.347
DS04	1.668	0.287
DS0c	0.591	0.321
GP01	-0.935	-0.119
GP02	-1.187	-1.034
GP0c	-0.61	-1.132
NOD	-0.903	0.376
NZO	0.543	1.046
PWK	-2.342	0.192
H37Rv_KO_CtpC	1.727	0.713
H37Rv_KO_CtpD	0.769	0.797
H37Rv_KO_Rv1272	2.315	0.65
H37Rv_KO_SugABC	3.786	0.814
H37Rv_KO_MbtN	2.954	0.723
Trans05	1.811	1.127
macrophage_unactivated	1.398	1.026
IL1	1.353	0.531
Rapamycin	2.157	0.632
Tcell	1.743	0.202
GMCSF	1.888	1.085
IFNab	0.426	0.187
IFNg	0.997	0.732
IFNg_GMCSF1	-0.556	0.0
Rv1432_day32	-0.426	0.407
Rv1565c_day32	-0.382	0.379
secA2_input	-1.035	-0.369
delta_Rv3594	-1.263	-0.174
delta_Rv3717	-1.195	-0.656
delta_Rv3811	-1.88	0.171
delta_Rv0954	-1.616	0.213
PonA1	-1.255	-0.365
EccD1_KO	1.756	0.763
EspI_KO	0.228	0.63
PE35_KO	0.563	0.333
PPE68_KO	1.126	0.288
glycerol2	-0.076	0.025
lignocerate	-0.359	-0.15
oleate	-0.227	0.364
phosphatidylcholine	0.426	0.025
acetate	-0.474	-0.323
glucAc	-0.524	-0.577
Rv0950ko	-0.1	0.033
Rv1096ko	0.253	-0.133
Rv3684ko	0.409	0.141
delta_otsA_trehalose	-1.615	-0.421