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 Rv0505c/serB1

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

	Rv2985/mutT1	Rv0505c/serB1
Fe_supp_jason_reseq	0.066	0.527
low_pH_jason_reseq	0.765	1.081
NO_jason_reseq	0.221	-0.344
B6_jason_reseq	-1.397	-1.334
MHCII_jason_reseq	-1.508	-0.512
Isoniazid02	0.876	0.0
Rifampicin4	-0.29	0.498
Ethambutol3	0.122	0.078
Meropenem3	-0.34	0.535
Vancomycin16	-0.069	-0.178
Rv2680_day32	-0.83	-0.33
H37Rv_KO_MarP	0.419	-0.54
hypoxia_3wks	0.327	0.913
hypoxia_6wks	0.282	0.892
glycerol	0.784	1.631
cholesterol	-0.773	0.0
AJ	-0.541	-0.212
Bibs02	-0.368	0.152
Bibs02c	0.444	0.629
BL6	0.939	0.731
BL6a	0.907	1.347
BXD01	-0.143	0.944
BXD010	0.749	2.061
BXD011	0.583	1.306
BXD03	0.597	1.146
BXD04	0.34	0.949
BXD05	0.639	1.335
BXD06	0.677	1.57
BXD07	-0.074	0.942
BXD08	1.096	1.956
BXD09	0.356	1.244
CAST	0.853	0.0
CCcont	0.317	1.992
DS01	0.648	0.197
DS02	-0.978	0.0
DS04	-1.211	0.583
DS0c	-0.116	0.181
GP01	0.996	0.082
GP02	0.511	0.4
GP0c	1.231	0.391
NOD	0.0	-0.205
NZO	0.701	-0.38
PWK	0.539	-0.374
H37Rv_KO_CtpC	0.85	0.488
H37Rv_KO_CtpD	1.239	0.862
H37Rv_KO_Rv1272	0.669	1.248
H37Rv_KO_SugABC	0.623	2.417
H37Rv_KO_MbtN	-0.31	0.791
Trans05	0.131	0.554
macrophage_unactivated	-0.303	-0.581
IL1	0.641	0.329
Rapamycin	0.601	-0.565
Tcell	-0.153	0.362
GMCSF	-0.671	-0.85
IFNab	-0.142	-1.197
IFNg	-0.393	-1.267
IFNg_GMCSF1	-0.625	-0.792
Rv1432_day32	-0.428	0.0
Rv1565c_day32	-0.13	0.0
secA2_input	-1.016	-1.983
delta_Rv3594	1.366	1.869
delta_Rv3717	0.337	1.343
delta_Rv3811	0.128	1.862
delta_Rv0954	1.154	1.154
PonA1	0.57	0.898
EccD1_KO	0.204	-0.263
EspI_KO	0.667	0.0
PE35_KO	0.123	0.916
PPE68_KO	-0.208	0.694
glycerol2	-0.069	-0.775
lignocerate	-1.61	-0.794
oleate	-0.216	0.22
phosphatidylcholine	-1.541	-0.406
acetate	0.155	-0.352
glucAc	-0.847	0.19
Rv0950ko	-0.16	-0.754
Rv1096ko	0.449	-2.289
Rv3684ko	0.0	-1.968
delta_otsA_trehalose	-0.486	0.084