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 Rv1111c/-:

update plot	correlation	link to info on gene
Rv3818/-	(cc=0.7343)	info on Rv3818/-
Rv3854c/ethA	(cc=0.69)	info on Rv3854c/ethA
Rv3267/-	(cc=0.6193)	info on Rv3267/-
Rv0497/-	(cc=0.6082)	info on Rv0497/-
Rv0050/ponA1	(cc=0.605)	info on Rv0050/ponA1
Rv1747/-	(cc=0.603)	info on Rv1747/-
Rv0309/-	(cc=0.5864)	info on Rv0309/-
Rv3794/embA	(cc=0.5803)	info on Rv3794/embA
Rv2190c/-	(cc=0.5646)	info on Rv2190c/-
Rv0397A/-	(cc=0.5632)	info on Rv0397A/-

Correlation of Rv1111c/- with Rv0397A/-

Normalized LFCs for Rv1111c/-:
(description and provenance of datasets)

	Rv1111c/-	Rv0397A/-
Fe_supp_jason_reseq	1.264	0.655
low_pH_jason_reseq	-0.413	-2.044
NO_jason_reseq	1.945	0.108
B6_jason_reseq	-0.818	-1.253
MHCII_jason_reseq	-0.503	-0.813
Isoniazid02	-0.885	-2.242
Rifampicin4	-2.32	-2.071
Ethambutol3	0.069	-1.31
Meropenem3	0.183	-1.388
Vancomycin16	-3.507	-1.464
Rv2680_day32	-1.668	-2.129
H37Rv_KO_MarP	-2.198	0.557
hypoxia_3wks	0.439	0.371
hypoxia_6wks	1.685	-0.209
glycerol	-1.398	-0.837
cholesterol	0.952	-1.69
AJ	-0.457	0.514
Bibs02	0.694	-0.034
Bibs02c	0.317	-1.052
BL6	1.483	0.714
BL6a	0.587	0.696
BXD01	0.552	1.016
BXD010	2.133	1.88
BXD011	0.913	2.276
BXD03	0.934	1.3
BXD04	1.083	1.568
BXD05	2.061	0.473
BXD06	1.355	1.729
BXD07	1.154	1.667
BXD08	0.549	0.335
BXD09	0.848	1.569
CAST	-0.903	-1.23
CCcont	0.802	1.256
DS01	0.075	0.132
DS02	0.035	1.404
DS04	1.003	-1.098
DS0c	0.478	0.933
GP01	0.83	1.24
GP02	0.0	1.347
GP0c	1.352	-0.157
NOD	-1.778	-0.867
NZO	0.126	-1.263
PWK	1.373	1.346
H37Rv_KO_CtpC	0.872	1.657
H37Rv_KO_CtpD	-0.437	-1.275
H37Rv_KO_Rv1272	0.469	2.524
H37Rv_KO_SugABC	1.22	0.293
H37Rv_KO_MbtN	2.108	1.94
Trans05	1.251	1.93
macrophage_unactivated	0.988	0.477
IL1	0.131	0.303
Rapamycin	0.491	0.908
Tcell	0.456	-0.036
GMCSF	1.299	1.13
IFNab	1.859	0.762
IFNg	0.663	-0.516
IFNg_GMCSF1	-0.145	0.321
Rv1432_day32	0.082	-0.107
Rv1565c_day32	0.619	0.144
secA2_input	0.199	0.803
delta_Rv3594	1.103	-1.025
delta_Rv3717	1.38	-1.007
delta_Rv3811	1.06	-0.329
delta_Rv0954	-1.398	-1.194
PonA1	-1.316	-0.792
EccD1_KO	-0.697	-1.108
EspI_KO	-0.231	-0.106
PE35_KO	-0.753	-0.143
PPE68_KO	-0.442	-0.486
glycerol2	-0.398	-0.311
lignocerate	-0.681	-1.053
oleate	-0.403	0.133
phosphatidylcholine	-1.008	-0.276
acetate	-0.086	-0.349
glucAc	-0.578	-0.937
Rv0950ko	-0.142	0.286
Rv1096ko	0.651	0.247
Rv3684ko	-0.206	0.092
delta_otsA_trehalose	-0.474	0.564