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 Rv2545/vapB18

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

	Rv0844c/narL	Rv2545/vapB18
Fe_supp_jason_reseq	-0.821	0.137
low_pH_jason_reseq	-0.885	-0.49
NO_jason_reseq	-0.798	0.116
B6_jason_reseq	-1.434	-1.036
MHCII_jason_reseq	-1.717	-1.423
Isoniazid02	-0.1	0.374
Rifampicin4	0.208	0.081
Ethambutol3	1.001	0.393
Meropenem3	0.189	0.204
Vancomycin16	-0.342	0.716
Rv2680_day32	0.584	0.343
H37Rv_KO_MarP	0.126	0.337
hypoxia_3wks	-0.167	0.666
hypoxia_6wks	-0.334	-0.687
glycerol	1.508	2.109
cholesterol	0.542	0.807
AJ	0.509	-0.015
Bibs02	-0.719	0.478
Bibs02c	-0.943	0.577
BL6	1.836	0.84
BL6a	1.204	0.898
BXD01	0.829	0.825
BXD010	0.842	0.789
BXD011	1.187	0.293
BXD03	1.108	1.178
BXD04	1.469	0.856
BXD05	0.771	0.654
BXD06	0.426	0.258
BXD07	0.737	0.651
BXD08	1.32	1.018
BXD09	1.096	0.533
CAST	0.282	0.874
CCcont	1.334	1.162
DS01	0.224	1.032
DS02	-0.191	0.6
DS04	-0.17	-0.076
DS0c	-0.358	0.556
GP01	1.085	0.418
GP02	2.145	1.606
GP0c	1.153	1.085
NOD	-0.884	0.168
NZO	0.337	-0.092
PWK	-0.254	0.493
H37Rv_KO_CtpC	1.893	1.776
H37Rv_KO_CtpD	1.565	1.744
H37Rv_KO_Rv1272	2.107	1.339
H37Rv_KO_SugABC	1.083	1.148
H37Rv_KO_MbtN	1.304	1.293
Trans05	1.91	1.398
macrophage_unactivated	0.707	1.07
IL1	0.507	-0.258
Rapamycin	0.319	0.034
Tcell	0.417	0.127
GMCSF	1.127	0.689
IFNab	0.753	1.037
IFNg	0.214	0.532
IFNg_GMCSF1	0.277	0.421
Rv1432_day32	0.675	0.325
Rv1565c_day32	0.215	-0.081
secA2_input	-0.549	-0.189
delta_Rv3594	-0.912	0.196
delta_Rv3717	-0.745	-0.024
delta_Rv3811	-1.019	-0.094
delta_Rv0954	-0.574	-1.215
PonA1	-0.895	-0.552
EccD1_KO	-0.03	0.428
EspI_KO	0.876	1.352
PE35_KO	0.528	0.965
PPE68_KO	0.627	0.323
glycerol2	0.659	0.951
lignocerate	0.951	0.854
oleate	1.168	0.994
phosphatidylcholine	0.808	1.071
acetate	-0.136	0.216
glucAc	0.086	0.243
Rv0950ko	-0.075	0.452
Rv1096ko	0.169	-0.651
Rv3684ko	-0.429	-0.157
delta_otsA_trehalose	-1.055	0.405