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 Rv0737/-:

update plot	correlation	link to info on gene
Rv1734c/-	(cc=0.6506)	info on Rv1734c/-
Rv0228/-	(cc=0.5921)	info on Rv0228/-
Rv1973/-	(cc=0.5896)	info on Rv1973/-
Rv2669/-	(cc=0.5766)	info on Rv2669/-
Rv3607c/folB	(cc=0.5739)	info on Rv3607c/folB
Rv0139/-	(cc=0.5674)	info on Rv0139/-
Rv2499c/-	(cc=0.5651)	info on Rv2499c/-
Rv1160/mutT2	(cc=0.5628)	info on Rv1160/mutT2
Rv0571c/-	(cc=0.5605)	info on Rv0571c/-
Rv3295/-	(cc=0.5571)	info on Rv3295/-

Correlation of Rv0737/- with Rv1734c/-

Normalized LFCs for Rv0737/-:
(description and provenance of datasets)

	Rv0737/-	Rv1734c/-
Fe_supp_jason_reseq	0.051	-0.758
low_pH_jason_reseq	-0.393	-1.522
NO_jason_reseq	-0.454	0.189
B6_jason_reseq	0.393	0.334
MHCII_jason_reseq	0.338	0.931
Isoniazid02	-0.243	0.07
Rifampicin4	-0.726	-0.972
Ethambutol3	-0.258	-0.362
Meropenem3	-0.038	-0.186
Vancomycin16	0.0	-0.791
Rv2680_day32	2.576	0.413
H37Rv_KO_MarP	0.69	-0.143
hypoxia_3wks	0.865	0.052
hypoxia_6wks	0.434	0.629
glycerol	-1.131	-1.717
cholesterol	0.0	-0.385
AJ	0.842	-0.637
Bibs02	-0.397	0.18
Bibs02c	0.687	-0.115
BL6	-0.014	-5.025
BL6a	-0.504	-1.475
BXD01	-1.162	-1.484
BXD010	-1.16	-1.162
BXD011	-1.623	-1.613
BXD03	-2.815	-2.441
BXD04	-1.653	-3.083
BXD05	-2.745	-3.861
BXD06	-1.548	-2.192
BXD07	-1.355	-2.899
BXD08	-1.669	-3.815
BXD09	-1.272	-2.746
CAST	0.234	-0.148
CCcont	-1.047	-3.255
DS01	0.595	0.659
DS02	-1.153	0.408
DS04	-1.272	0.481
DS0c	1.334	0.424
GP01	-0.966	-0.855
GP02	-0.907	-1.086
GP0c	0.576	-2.222
NOD	0.013	-0.272
NZO	-0.279	-0.8
PWK	0.635	0.074
H37Rv_KO_CtpC	-1.101	-1.159
H37Rv_KO_CtpD	-0.094	-4.643
H37Rv_KO_Rv1272	-0.178	-0.903
H37Rv_KO_SugABC	-0.397	0.39
H37Rv_KO_MbtN	0.959	-0.286
Trans05	-2.56	-0.229
macrophage_unactivated	-1.477	-4.564
IL1	-2.186	-6.0
Rapamycin	-1.728	-5.291
Tcell	-0.456	-2.727
GMCSF	-2.358	-4.668
IFNab	-1.146	-4.831
IFNg	-1.419	-6.0
IFNg_GMCSF1	-0.839	-2.485
Rv1432_day32	-0.183	0.421
Rv1565c_day32	0.539	-0.199
secA2_input	0.348	-5.268
delta_Rv3594	1.141	2.268
delta_Rv3717	0.61	1.881
delta_Rv3811	1.75	2.17
delta_Rv0954	1.691	1.354
PonA1	2.195	2.964
EccD1_KO	0.678	-0.664
EspI_KO	-0.65	-2.98
PE35_KO	-0.385	-1.19
PPE68_KO	-1.273	-1.699
glycerol2	1.01	-0.336
lignocerate	0.311	-0.566
oleate	0.553	0.34
phosphatidylcholine	0.588	-0.227
acetate	-0.19	-0.01
glucAc	-0.27	-1.467
Rv0950ko	0.612	0.519
Rv1096ko	1.095	0.642
Rv3684ko	0.327	-0.115
delta_otsA_trehalose	0.718	0.443