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 Rv0844c/narL:

update plot	correlation	link to info on gene
Rv2545/vapB18	(cc=0.7502)	info on Rv2545/vapB18
Rv1548c/PPE21	(cc=0.6708)	info on Rv1548c/PPE21
Rv0742/PE_PGRS8	(cc=0.6669)	info on Rv0742/PE_PGRS8
Rv3146/nuoB	(cc=0.659)	info on Rv3146/nuoB
Rv1891/-	(cc=0.6546)	info on Rv1891/-
Rv1729c/-	(cc=0.6417)	info on Rv1729c/-
Rv1551/plsB1	(cc=0.6337)	info on Rv1551/plsB1
Rv3150/nuoF	(cc=0.6226)	info on Rv3150/nuoF
Rv0971c/echA7	(cc=0.618)	info on Rv0971c/echA7
Rv3694c/-	(cc=0.6131)	info on Rv3694c/-

Correlation of Rv0844c/narL with Rv1891/-

Normalized LFCs for Rv0844c/narL:
(description and provenance of datasets)

	Rv0844c/narL	Rv1891/-
Fe_supp_jason_reseq	-0.821	0.152
low_pH_jason_reseq	-0.885	0.182
NO_jason_reseq	-0.798	-0.58
B6_jason_reseq	-1.434	-1.736
MHCII_jason_reseq	-1.717	-2.1
Isoniazid02	-0.1	-0.856
Rifampicin4	0.208	-0.436
Ethambutol3	1.001	-1.052
Meropenem3	0.189	-0.55
Vancomycin16	-0.342	0.013
Rv2680_day32	0.584	0.038
H37Rv_KO_MarP	0.126	0.416
hypoxia_3wks	-0.167	-0.072
hypoxia_6wks	-0.334	-1.194
glycerol	1.508	0.148
cholesterol	0.542	-0.331
AJ	0.509	1.151
Bibs02	-0.719	-2.375
Bibs02c	-0.943	-0.534
BL6	1.836	0.932
BL6a	1.204	1.036
BXD01	0.829	1.005
BXD010	0.842	0.766
BXD011	1.187	0.785
BXD03	1.108	1.371
BXD04	1.469	-0.082
BXD05	0.771	0.39
BXD06	0.426	0.93
BXD07	0.737	1.317
BXD08	1.32	1.423
BXD09	1.096	1.202
CAST	0.282	0.389
CCcont	1.334	1.191
DS01	0.224	-0.736
DS02	-0.191	0.326
DS04	-0.17	0.103
DS0c	-0.358	-0.553
GP01	1.085	0.477
GP02	2.145	1.328
GP0c	1.153	1.587
NOD	-0.884	0.208
NZO	0.337	1.017
PWK	-0.254	0.0
H37Rv_KO_CtpC	1.893	1.865
H37Rv_KO_CtpD	1.565	0.924
H37Rv_KO_Rv1272	2.107	0.869
H37Rv_KO_SugABC	1.083	0.657
H37Rv_KO_MbtN	1.304	1.416
Trans05	1.91	1.462
macrophage_unactivated	0.707	0.615
IL1	0.507	-0.394
Rapamycin	0.319	0.246
Tcell	0.417	-0.355
GMCSF	1.127	0.116
IFNab	0.753	0.747
IFNg	0.214	0.158
IFNg_GMCSF1	0.277	-0.575
Rv1432_day32	0.675	-0.022
Rv1565c_day32	0.215	0.379
secA2_input	-0.549	0.063
delta_Rv3594	-0.912	0.102
delta_Rv3717	-0.745	-0.072
delta_Rv3811	-1.019	-1.029
delta_Rv0954	-0.574	-0.662
PonA1	-0.895	-0.19
EccD1_KO	-0.03	-0.26
EspI_KO	0.876	0.334
PE35_KO	0.528	-0.193
PPE68_KO	0.627	-0.522
glycerol2	0.659	-0.446
lignocerate	0.951	-0.409
oleate	1.168	-0.489
phosphatidylcholine	0.808	-0.598
acetate	-0.136	-0.218
glucAc	0.086	-0.234
Rv0950ko	-0.075	0.724
Rv1096ko	0.169	0.368
Rv3684ko	-0.429	0.0
delta_otsA_trehalose	-1.055	-0.84