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 Rv3505/fadE27:

update plot	correlation	link to info on gene
Rv3152/nuoH	(cc=0.4212)	info on Rv3152/nuoH
Rv0755A/-	(cc=0.4163)	info on Rv0755A/-
Rv1362c/-	(cc=0.4051)	info on Rv1362c/-
Rv3382c/lytB1	(cc=0.3987)	info on Rv3382c/lytB1
Rv0052/-	(cc=0.3866)	info on Rv0052/-
Rv1021/-	(cc=0.3832)	info on Rv1021/-
Rv0799c/-	(cc=0.3697)	info on Rv0799c/-
Rv0459/-	(cc=0.3641)	info on Rv0459/-
Rv2548/vapC19	(cc=0.364)	info on Rv2548/vapC19
Rv3150/nuoF	(cc=0.3634)	info on Rv3150/nuoF

Correlation of Rv3505/fadE27 with Rv3150/nuoF

Normalized LFCs for Rv3505/fadE27:
(description and provenance of datasets)

	Rv3505/fadE27	Rv3150/nuoF
Fe_supp_jason_reseq	-0.939	-1.514
low_pH_jason_reseq	-0.661	-0.313
NO_jason_reseq	0.898	-0.252
B6_jason_reseq	-0.468	-1.087
MHCII_jason_reseq	0.885	-1.509
Isoniazid02	0.383	0.611
Rifampicin4	-0.149	0.282
Ethambutol3	-0.235	-0.595
Meropenem3	-0.386	-0.847
Vancomycin16	0.321	-0.196
Rv2680_day32	-1.293	0.266
H37Rv_KO_MarP	-0.188	-0.246
hypoxia_3wks	0.538	1.097
hypoxia_6wks	0.192	0.754
glycerol	-0.762	-0.471
cholesterol	-0.835	-0.216
AJ	0.108	-0.983
Bibs02	1.094	0.55
Bibs02c	1.325	-0.23
BL6	0.3	1.845
BL6a	1.403	2.251
BXD01	-0.552	1.864
BXD010	0.444	2.266
BXD011	0.631	2.05
BXD03	-0.421	2.177
BXD04	1.208	2.337
BXD05	0.042	2.126
BXD06	0.607	2.045
BXD07	0.4	2.3
BXD08	0.352	2.274
BXD09	0.208	2.374
CAST	-0.354	0.506
CCcont	0.432	1.451
DS01	0.737	0.583
DS02	-1.027	0.147
DS04	0.465	0.426
DS0c	0.068	0.969
GP01	-1.134	0.715
GP02	0.379	0.875
GP0c	-0.521	1.092
NOD	-0.848	-0.838
NZO	0.503	0.38
PWK	-1.131	-0.142
H37Rv_KO_CtpC	0.671	1.463
H37Rv_KO_CtpD	1.244	2.661
H37Rv_KO_Rv1272	-0.501	1.929
H37Rv_KO_SugABC	0.575	1.426
H37Rv_KO_MbtN	0.078	1.537
Trans05	1.521	1.798
macrophage_unactivated	-1.086	0.284
IL1	0.258	0.267
Rapamycin	0.448	0.365
Tcell	-0.815	0.746
GMCSF	1.325	0.388
IFNab	-0.079	1.69
IFNg	-0.668	-0.302
IFNg_GMCSF1	-0.163	0.145
Rv1432_day32	-0.42	0.568
Rv1565c_day32	0.556	-0.208
secA2_input	0.723	-0.116
delta_Rv3594	-0.607	0.392
delta_Rv3717	-1.029	0.299
delta_Rv3811	-0.674	0.094
delta_Rv0954	-0.995	-0.057
PonA1	-0.355	-0.39
EccD1_KO	-0.51	-0.474
EspI_KO	-1.101	-0.177
PE35_KO	-0.131	-0.467
PPE68_KO	0.362	0.0
glycerol2	-0.324	1.866
lignocerate	-0.066	-0.192
oleate	0.0	2.076
phosphatidylcholine	-0.238	-0.221
acetate	0.213	-0.263
glucAc	0.49	0.587
Rv0950ko	-0.829	0.311
Rv1096ko	-0.274	0.639
Rv3684ko	-1.019	0.098
delta_otsA_trehalose	0.422	0.965