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 Rv2985/mutT1:

update plot	correlation	link to info on gene
Rv0505c/serB1	(cc=0.4991)	info on Rv0505c/serB1
Rv1059/-	(cc=0.4928)	info on Rv1059/-
Rv1752/-	(cc=0.478)	info on Rv1752/-
Rv1505c/-	(cc=0.4747)	info on Rv1505c/-
Rv1806/PE20	(cc=0.4625)	info on Rv1806/PE20
Rv2160c/-	(cc=0.46)	info on Rv2160c/-
Rv1422/-	(cc=0.4477)	info on Rv1422/-
Rv2650c/-	(cc=0.4405)	info on Rv2650c/-
Rv1239c/corA	(cc=0.4376)	info on Rv1239c/corA
Rv2134c/-	(cc=0.4372)	info on Rv2134c/-

Correlation of Rv2985/mutT1 with Rv2160c/-

Normalized LFCs for Rv2985/mutT1:
(description and provenance of datasets)

	Rv2985/mutT1	Rv2160c/-
Fe_supp_jason_reseq	0.066	1.52
low_pH_jason_reseq	0.765	4.352
NO_jason_reseq	0.221	0.753
B6_jason_reseq	-1.397	-2.842
MHCII_jason_reseq	-1.508	-1.526
Isoniazid02	0.876	1.425
Rifampicin4	-0.29	2.532
Ethambutol3	0.122	1.242
Meropenem3	-0.34	0.734
Vancomycin16	-0.069	1.91
Rv2680_day32	-0.83	1.13
H37Rv_KO_MarP	0.419	-1.978
hypoxia_3wks	0.327	0.227
hypoxia_6wks	0.282	-0.553
glycerol	0.784	-0.709
cholesterol	-0.773	0.381
AJ	-0.541	1.407
Bibs02	-0.368	-0.642
Bibs02c	0.444	0.152
BL6	0.939	1.405
BL6a	0.907	3.474
BXD01	-0.143	3.406
BXD010	0.749	2.92
BXD011	0.583	1.463
BXD03	0.597	2.676
BXD04	0.34	3.661
BXD05	0.639	3.4
BXD06	0.677	2.323
BXD07	-0.074	3.363
BXD08	1.096	3.315
BXD09	0.356	2.959
CAST	0.853	-0.809
CCcont	0.317	1.923
DS01	0.648	-0.83
DS02	-0.978	-0.764
DS04	-1.211	-0.682
DS0c	-0.116	-0.762
GP01	0.996	1.484
GP02	0.511	0.266
GP0c	1.231	2.167
NOD	0.0	-0.789
NZO	0.701	1.29
PWK	0.539	-0.315
H37Rv_KO_CtpC	0.85	1.404
H37Rv_KO_CtpD	1.239	2.563
H37Rv_KO_Rv1272	0.669	0.371
H37Rv_KO_SugABC	0.623	-0.348
H37Rv_KO_MbtN	-0.31	1.018
Trans05	0.131	1.594
macrophage_unactivated	-0.303	-0.047
IL1	0.641	-0.481
Rapamycin	0.601	1.043
Tcell	-0.153	2.441
GMCSF	-0.671	1.65
IFNab	-0.142	1.173
IFNg	-0.393	-0.623
IFNg_GMCSF1	-0.625	-0.047
Rv1432_day32	-0.428	-0.18
Rv1565c_day32	-0.13	0.218
secA2_input	-1.016	-2.44
delta_Rv3594	1.366	2.961
delta_Rv3717	0.337	1.136
delta_Rv3811	0.128	1.187
delta_Rv0954	1.154	2.37
PonA1	0.57	3.066
EccD1_KO	0.204	0.352
EspI_KO	0.667	-1.996
PE35_KO	0.123	-1.105
PPE68_KO	-0.208	-0.294
glycerol2	-0.069	0.42
lignocerate	-1.61	-0.695
oleate	-0.216	1.113
phosphatidylcholine	-1.541	0.336
acetate	0.155	-1.93
glucAc	-0.847	-3.427
Rv0950ko	-0.16	-1.405
Rv1096ko	0.449	1.61
Rv3684ko	0.0	-1.755
delta_otsA_trehalose	-0.486	0.654