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 Rv0050/ponA1

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

	Rv1111c/-	Rv0050/ponA1
Fe_supp_jason_reseq	1.264	0.508
low_pH_jason_reseq	-0.413	0.192
NO_jason_reseq	1.945	-0.16
B6_jason_reseq	-0.818	0.777
MHCII_jason_reseq	-0.503	0.058
Isoniazid02	-0.885	-1.202
Rifampicin4	-2.32	-1.156
Ethambutol3	0.069	-0.711
Meropenem3	0.183	-0.237
Vancomycin16	-3.507	-4.51
Rv2680_day32	-1.668	0.058
H37Rv_KO_MarP	-2.198	-3.768
hypoxia_3wks	0.439	-0.443
hypoxia_6wks	1.685	-1.059
glycerol	-1.398	-0.146
cholesterol	0.952	0.398
AJ	-0.457	-0.644
Bibs02	0.694	-1.597
Bibs02c	0.317	-0.399
BL6	1.483	0.47
BL6a	0.587	0.319
BXD01	0.552	0.322
BXD010	2.133	0.316
BXD011	0.913	0.966
BXD03	0.934	0.604
BXD04	1.083	0.634
BXD05	2.061	0.877
BXD06	1.355	0.33
BXD07	1.154	0.452
BXD08	0.549	1.558
BXD09	0.848	0.69
CAST	-0.903	-0.439
CCcont	0.802	1.278
DS01	0.075	-0.084
DS02	0.035	-0.704
DS04	1.003	-0.453
DS0c	0.478	0.652
GP01	0.83	0.396
GP02	0.0	1.958
GP0c	1.352	1.151
NOD	-1.778	-0.428
NZO	0.126	-0.553
PWK	1.373	-0.831
H37Rv_KO_CtpC	0.872	0.213
H37Rv_KO_CtpD	-0.437	0.566
H37Rv_KO_Rv1272	0.469	0.048
H37Rv_KO_SugABC	1.22	1.16
H37Rv_KO_MbtN	2.108	0.484
Trans05	1.251	0.249
macrophage_unactivated	0.988	0.65
IL1	0.131	0.418
Rapamycin	0.491	1.188
Tcell	0.456	0.459
GMCSF	1.299	0.283
IFNab	1.859	0.72
IFNg	0.663	0.551
IFNg_GMCSF1	-0.145	0.748
Rv1432_day32	0.082	-1.068
Rv1565c_day32	0.619	0.0
secA2_input	0.199	-0.47
delta_Rv3594	1.103	0.179
delta_Rv3717	1.38	-0.799
delta_Rv3811	1.06	0.107
delta_Rv0954	-1.398	-1.601
PonA1	-1.316	-2.956
EccD1_KO	-0.697	-0.661
EspI_KO	-0.231	-0.761
PE35_KO	-0.753	-1.817
PPE68_KO	-0.442	-0.442
glycerol2	-0.398	-1.582
lignocerate	-0.681	-1.61
oleate	-0.403	-1.733
phosphatidylcholine	-1.008	-2.001
acetate	-0.086	-0.291
glucAc	-0.578	-0.088
Rv0950ko	-0.142	-0.305
Rv1096ko	0.651	-0.151
Rv3684ko	-0.206	0.809
delta_otsA_trehalose	-0.474	0.564