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 Rv2517c/-:

update plot	correlation	link to info on gene
Rv1087A/-	(cc=0.5773)	info on Rv1087A/-
Rv0089/-	(cc=0.5673)	info on Rv0089/-
Rv2599/-	(cc=0.5641)	info on Rv2599/-
Rv0136/cyp138	(cc=0.5488)	info on Rv0136/cyp138
Rv2332/mez	(cc=0.5354)	info on Rv2332/mez
Rv0783c/emrB	(cc=0.5321)	info on Rv0783c/emrB
Rv1367c/-	(cc=0.5296)	info on Rv1367c/-
Rv1999c/-	(cc=0.5289)	info on Rv1999c/-
Rv3056/dinP	(cc=0.5223)	info on Rv3056/dinP
Rv1429/-	(cc=0.522)	info on Rv1429/-

Correlation of Rv2517c/- with Rv1087A/-

Normalized LFCs for Rv2517c/-:
(description and provenance of datasets)

	Rv2517c/-	Rv1087A/-
Fe_supp_jason_reseq	-0.306	0.453
low_pH_jason_reseq	-1.091	-1.086
NO_jason_reseq	-0.601	0.123
B6_jason_reseq	0.386	1.213
MHCII_jason_reseq	-0.061	1.116
Isoniazid02	-0.026	0.035
Rifampicin4	-0.59	0.398
Ethambutol3	-0.265	-0.103
Meropenem3	-0.526	-1.94
Vancomycin16	-0.119	-0.875
Rv2680_day32	0.049	0.296
H37Rv_KO_MarP	0.674	0.066
hypoxia_3wks	-0.048	-0.686
hypoxia_6wks	-1.034	-0.844
glycerol	-1.513	-1.915
cholesterol	-0.443	-1.713
AJ	0.371	-0.182
Bibs02	0.05	0.041
Bibs02c	-0.317	0.115
BL6	-2.66	-0.445
BL6a	-1.403	-0.099
BXD01	-0.843	-0.927
BXD010	-1.406	-0.156
BXD011	-0.622	-0.253
BXD03	-2.026	-0.731
BXD04	-1.197	-0.476
BXD05	-0.426	-0.178
BXD06	-2.0	-1.182
BXD07	-0.649	-0.407
BXD08	-1.864	-0.761
BXD09	-1.21	-0.564
CAST	-0.469	0.22
CCcont	-1.673	-0.654
DS01	-0.801	-0.38
DS02	-0.978	0.151
DS04	0.008	-0.389
DS0c	-0.847	-0.288
GP01	-0.297	-1.407
GP02	0.068	-0.019
GP0c	-1.863	-1.673
NOD	0.124	-0.677
NZO	1.497	0.351
PWK	-0.088	0.233
H37Rv_KO_CtpC	-0.587	-0.031
H37Rv_KO_CtpD	-0.897	0.673
H37Rv_KO_Rv1272	-1.268	0.166
H37Rv_KO_SugABC	0.962	0.715
H37Rv_KO_MbtN	-1.354	-0.102
Trans05	1.562	0.132
macrophage_unactivated	-0.669	-0.578
IL1	-0.673	-0.51
Rapamycin	-0.601	-1.111
Tcell	-0.264	-0.727
GMCSF	-0.177	-0.283
IFNab	-2.431	-1.246
IFNg	-1.227	-0.898
IFNg_GMCSF1	-1.332	-0.314
Rv1432_day32	0.975	0.447
Rv1565c_day32	0.0	0.423
secA2_input	-1.382	-0.823
delta_Rv3594	-0.821	0.032
delta_Rv3717	-1.189	-1.053
delta_Rv3811	-0.784	-1.044
delta_Rv0954	0.0	-0.009
PonA1	-0.517	-0.631
EccD1_KO	-0.076	0.671
EspI_KO	0.861	0.873
PE35_KO	0.691	0.187
PPE68_KO	0.787	-0.038
glycerol2	0.021	0.581
lignocerate	0.358	0.592
oleate	0.434	0.296
phosphatidylcholine	0.797	0.769
acetate	0.509	0.326
glucAc	0.264	0.52
Rv0950ko	0.555	0.365
Rv1096ko	-0.443	-0.075
Rv3684ko	-0.249	-0.151
delta_otsA_trehalose	-1.833	-0.724