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 Rv3272/-:

update plot	correlation	link to info on gene
Rv3273/-	(cc=0.6682)	info on Rv3273/-
Rv2620c/-	(cc=0.5035)	info on Rv2620c/-
Rv1809/PPE33	(cc=0.4931)	info on Rv1809/PPE33
Rv1808/PPE32	(cc=0.4802)	info on Rv1808/PPE32
Rv1405c/-	(cc=0.4785)	info on Rv1405c/-
Rv2851c/-	(cc=0.4743)	info on Rv2851c/-
Rv3535c/hsaG	(cc=0.4618)	info on Rv3535c/hsaG
Rv1590/-	(cc=0.4505)	info on Rv1590/-
Rv0485/-	(cc=0.45)	info on Rv0485/-
Rv2475c/-	(cc=0.4499)	info on Rv2475c/-

Correlation of Rv3272/- with Rv3273/-

Normalized LFCs for Rv3272/-:
(description and provenance of datasets)

	Rv3272/-	Rv3273/-
Fe_supp_jason_reseq	-1.133	-1.46
low_pH_jason_reseq	-1.787	-1.335
NO_jason_reseq	-1.864	-1.924
B6_jason_reseq	-1.082	-1.095
MHCII_jason_reseq	-0.511	-0.165
Isoniazid02	0.821	0.899
Rifampicin4	-0.707	-0.774
Ethambutol3	-0.535	0.151
Meropenem3	0.107	0.149
Vancomycin16	-0.464	-0.488
Rv2680_day32	-0.522	-0.251
H37Rv_KO_MarP	0.305	0.195
hypoxia_3wks	0.829	0.945
hypoxia_6wks	0.737	0.309
glycerol	-1.456	-0.927
cholesterol	-0.577	0.208
AJ	-1.331	-1.309
Bibs02	-0.848	0.658
Bibs02c	0.3	0.855
BL6	0.749	0.522
BL6a	-0.442	0.263
BXD01	-0.519	-0.902
BXD010	-0.105	-0.723
BXD011	-0.623	0.008
BXD03	-0.066	-0.543
BXD04	-0.39	-0.739
BXD05	-0.727	-0.454
BXD06	-0.081	-0.37
BXD07	-0.73	-0.721
BXD08	-0.499	-0.972
BXD09	-0.413	-0.378
CAST	-1.026	-1.625
CCcont	-0.312	-0.183
DS01	-0.517	0.636
DS02	0.134	0.712
DS04	0.332	0.037
DS0c	-0.79	0.721
GP01	-0.004	-0.172
GP02	-0.682	-0.687
GP0c	-1.11	-0.547
NOD	-0.818	-0.46
NZO	-1.315	-1.332
PWK	-1.54	-1.591
H37Rv_KO_CtpC	0.571	-0.064
H37Rv_KO_CtpD	-0.974	0.217
H37Rv_KO_Rv1272	-0.122	-0.579
H37Rv_KO_SugABC	-1.19	-0.465
H37Rv_KO_MbtN	-0.393	-0.164
Trans05	-0.135	-0.858
macrophage_unactivated	0.0	-0.183
IL1	0.706	1.679
Rapamycin	1.083	1.062
Tcell	-0.078	-0.746
GMCSF	0.061	0.597
IFNab	0.0	0.662
IFNg	0.706	1.497
IFNg_GMCSF1	0.534	0.368
Rv1432_day32	-0.309	-0.063
Rv1565c_day32	-2.213	-1.677
secA2_input	-0.717	-0.213
delta_Rv3594	-0.078	-0.875
delta_Rv3717	0.081	-0.471
delta_Rv3811	0.0	-0.344
delta_Rv0954	0.482	-0.976
PonA1	-0.31	-0.185
EccD1_KO	0.349	-0.707
EspI_KO	0.428	-0.65
PE35_KO	-0.286	-0.98
PPE68_KO	-0.128	-0.486
glycerol2	1.75	1.386
lignocerate	0.118	-0.935
oleate	-0.998	-3.077
phosphatidylcholine	1.45	0.973
acetate	0.587	0.482
glucAc	0.529	0.24
Rv0950ko	-0.084	-0.488
Rv1096ko	0.398	-0.118
Rv3684ko	0.029	-0.819
delta_otsA_trehalose	0.9	-0.382