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 Rv2562/-:

update plot	correlation	link to info on gene
Rv2276/cyp121	(cc=0.5556)	info on Rv2276/cyp121
Rv2833c/ugpB	(cc=0.5305)	info on Rv2833c/ugpB
Rv1954A/-	(cc=0.5253)	info on Rv1954A/-
Rv1526c/-	(cc=0.5193)	info on Rv1526c/-
Rv0698/-	(cc=0.4958)	info on Rv0698/-
Rv0792c/-	(cc=0.4799)	info on Rv0792c/-
Rv0349/-	(cc=0.4789)	info on Rv0349/-
Rv2253/-	(cc=0.4763)	info on Rv2253/-
Rv2040c/-	(cc=0.4693)	info on Rv2040c/-
Rv3429/PPE59	(cc=0.4624)	info on Rv3429/PPE59

Correlation of Rv2562/- with Rv0349/-

Normalized LFCs for Rv2562/-:
(description and provenance of datasets)

	Rv2562/-	Rv0349/-
Fe_supp_jason_reseq	-0.226	-1.381
low_pH_jason_reseq	-0.87	-0.726
NO_jason_reseq	-0.386	-0.73
B6_jason_reseq	-1.875	-1.532
MHCII_jason_reseq	-0.528	-0.575
Isoniazid02	0.224	0.582
Rifampicin4	0.441	0.068
Ethambutol3	0.045	1.302
Meropenem3	0.401	0.081
Vancomycin16	0.647	-0.204
Rv2680_day32	0.503	-0.262
H37Rv_KO_MarP	0.422	-0.023
hypoxia_3wks	-0.471	-0.498
hypoxia_6wks	0.044	-0.073
glycerol	-1.226	-3.111
cholesterol	-0.097	-0.749
AJ	-0.022	-0.427
Bibs02	0.743	-0.225
Bibs02c	-1.088	-0.129
BL6	0.954	0.199
BL6a	-0.293	0.438
BXD01	0.195	0.176
BXD010	0.7	0.048
BXD011	0.647	0.264
BXD03	0.533	0.407
BXD04	0.614	0.529
BXD05	0.613	0.851
BXD06	1.012	0.682
BXD07	0.602	0.209
BXD08	0.675	0.368
BXD09	0.787	0.452
CAST	0.719	0.187
CCcont	0.349	0.697
DS01	-0.44	0.009
DS02	-0.05	-0.4
DS04	0.658	0.157
DS0c	0.209	-0.473
GP01	0.295	-0.398
GP02	0.362	0.13
GP0c	0.024	0.332
NOD	1.036	-1.085
NZO	-0.275	-0.954
PWK	0.371	-0.121
H37Rv_KO_CtpC	0.923	0.354
H37Rv_KO_CtpD	1.291	0.562
H37Rv_KO_Rv1272	0.843	0.375
H37Rv_KO_SugABC	0.168	0.666
H37Rv_KO_MbtN	-0.83	-0.333
Trans05	1.309	-0.046
macrophage_unactivated	1.446	0.325
IL1	0.528	0.611
Rapamycin	0.712	-0.328
Tcell	0.613	-0.293
GMCSF	0.04	2.025
IFNab	-0.339	0.13
IFNg	0.858	0.155
IFNg_GMCSF1	0.575	0.229
Rv1432_day32	-0.332	-0.756
Rv1565c_day32	-0.423	0.545
secA2_input	-1.929	-1.291
delta_Rv3594	0.153	1.433
delta_Rv3717	-0.077	0.477
delta_Rv3811	0.125	1.206
delta_Rv0954	0.021	1.636
PonA1	0.853	0.751
EccD1_KO	0.441	0.385
EspI_KO	0.476	0.068
PE35_KO	0.825	-1.14
PPE68_KO	0.723	-0.598
glycerol2	1.247	1.92
lignocerate	1.249	1.891
oleate	0.943	0.213
phosphatidylcholine	1.424	1.55
acetate	1.077	2.041
glucAc	0.617	1.087
Rv0950ko	-0.585	0.609
Rv1096ko	-0.368	0.573
Rv3684ko	0.079	0.891
delta_otsA_trehalose	-0.634	-0.151