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 Rv0731c/-:

update plot	correlation	link to info on gene
Rv1961/-	(cc=0.4837)	info on Rv1961/-
Rv2918c/glnD	(cc=0.4799)	info on Rv2918c/glnD
Rv1413/-	(cc=0.4713)	info on Rv1413/-
Rv0516c/-	(cc=0.4611)	info on Rv0516c/-
Rv1245c/-	(cc=0.4479)	info on Rv1245c/-
Rv1584c/-	(cc=0.4378)	info on Rv1584c/-
Rv2037c/-	(cc=0.4333)	info on Rv2037c/-
Rv1749c/-	(cc=0.4319)	info on Rv1749c/-
Rv3297/nei	(cc=0.4312)	info on Rv3297/nei
Rv3312A/-	(cc=0.4256)	info on Rv3312A/-

Correlation of Rv0731c/- with Rv3312A/-

Normalized LFCs for Rv0731c/-:
(description and provenance of datasets)

	Rv0731c/-	Rv3312A/-
Fe_supp_jason_reseq	-1.484	-0.35
low_pH_jason_reseq	-0.975	-0.132
NO_jason_reseq	0.74	0.893
B6_jason_reseq	-0.431	1.266
MHCII_jason_reseq	-0.892	0.295
Isoniazid02	0.525	0.941
Rifampicin4	-0.317	0.742
Ethambutol3	-0.98	0.548
Meropenem3	-0.316	2.13
Vancomycin16	-0.029	0.727
Rv2680_day32	-1.232	-0.959
H37Rv_KO_MarP	0.22	0.344
hypoxia_3wks	-0.371	-0.231
hypoxia_6wks	0.405	-0.395
glycerol	0.6	0.726
cholesterol	0.823	0.382
AJ	0.203	0.225
Bibs02	-0.634	-1.288
Bibs02c	0.099	-0.975
BL6	-0.235	-0.038
BL6a	-0.08	-0.436
BXD01	-1.353	0.434
BXD010	-0.525	-0.436
BXD011	-0.128	-0.098
BXD03	-0.845	0.181
BXD04	-0.662	-0.474
BXD05	0.431	0.265
BXD06	-0.206	0.331
BXD07	-0.266	0.75
BXD08	-0.491	-0.034
BXD09	-0.318	0.066
CAST	-0.272	-0.017
CCcont	-0.675	0.157
DS01	0.956	-0.27
DS02	1.366	0.274
DS04	1.265	0.022
DS0c	0.644	0.064
GP01	1.001	0.31
GP02	2.425	1.1
GP0c	0.578	0.597
NOD	1.269	0.382
NZO	-0.272	-0.377
PWK	-0.189	-0.328
H37Rv_KO_CtpC	0.427	-0.717
H37Rv_KO_CtpD	0.892	0.144
H37Rv_KO_Rv1272	-0.451	-0.912
H37Rv_KO_SugABC	0.587	-0.312
H37Rv_KO_MbtN	0.769	0.777
Trans05	0.327	-0.372
macrophage_unactivated	-0.158	0.133
IL1	-0.083	0.113
Rapamycin	-0.052	0.292
Tcell	0.088	0.336
GMCSF	-0.253	-0.034
IFNab	0.0	-0.804
IFNg	-0.759	0.551
IFNg_GMCSF1	1.656	-0.478
Rv1432_day32	-0.481	0.48
Rv1565c_day32	-3.304	-3.838
secA2_input	0.191	0.243
delta_Rv3594	0.15	1.41
delta_Rv3717	0.898	1.221
delta_Rv3811	0.0	0.55
delta_Rv0954	-0.221	1.469
PonA1	0.585	1.13
EccD1_KO	-0.806	-0.747
EspI_KO	-0.405	-0.374
PE35_KO	-0.044	-0.875
PPE68_KO	0.368	-0.771
glycerol2	0.251	1.241
lignocerate	0.423	1.444
oleate	0.0	0.771
phosphatidylcholine	0.053	1.408
acetate	0.698	0.48
glucAc	0.114	0.764
Rv0950ko	-0.356	0.519
Rv1096ko	0.736	0.452
Rv3684ko	-0.02	0.252
delta_otsA_trehalose	0.287	-0.354