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 Rv2620c/-

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

	Rv3272/-	Rv2620c/-
Fe_supp_jason_reseq	-1.133	1.026
low_pH_jason_reseq	-1.787	-1.017
NO_jason_reseq	-1.864	-2.268
B6_jason_reseq	-1.082	-0.493
MHCII_jason_reseq	-0.511	-0.611
Isoniazid02	0.821	0.738
Rifampicin4	-0.707	0.192
Ethambutol3	-0.535	0.524
Meropenem3	0.107	0.879
Vancomycin16	-0.464	0.329
Rv2680_day32	-0.522	-0.886
H37Rv_KO_MarP	0.305	-0.329
hypoxia_3wks	0.829	0.259
hypoxia_6wks	0.737	-0.061
glycerol	-1.456	-0.979
cholesterol	-0.577	-0.344
AJ	-1.331	-0.966
Bibs02	-0.848	-0.215
Bibs02c	0.3	-0.715
BL6	0.749	-0.171
BL6a	-0.442	-0.189
BXD01	-0.519	-0.824
BXD010	-0.105	-0.748
BXD011	-0.623	-0.689
BXD03	-0.066	-0.704
BXD04	-0.39	0.495
BXD05	-0.727	-0.605
BXD06	-0.081	-0.402
BXD07	-0.73	-0.507
BXD08	-0.499	-1.413
BXD09	-0.413	-0.396
CAST	-1.026	-2.611
CCcont	-0.312	0.661
DS01	-0.517	-1.862
DS02	0.134	-1.905
DS04	0.332	-0.384
DS0c	-0.79	-1.815
GP01	-0.004	0.175
GP02	-0.682	1.757
GP0c	-1.11	0.157
NOD	-0.818	-2.88
NZO	-1.315	-0.92
PWK	-1.54	-1.651
H37Rv_KO_CtpC	0.571	-0.787
H37Rv_KO_CtpD	-0.974	-0.433
H37Rv_KO_Rv1272	-0.122	0.264
H37Rv_KO_SugABC	-1.19	-1.414
H37Rv_KO_MbtN	-0.393	-1.048
Trans05	-0.135	-0.224
macrophage_unactivated	0.0	0.085
IL1	0.706	0.848
Rapamycin	1.083	0.675
Tcell	-0.078	0.326
GMCSF	0.061	1.626
IFNab	0.0	0.463
IFNg	0.706	0.927
IFNg_GMCSF1	0.534	0.393
Rv1432_day32	-0.309	-1.97
Rv1565c_day32	-2.213	-1.617
secA2_input	-0.717	0.502
delta_Rv3594	-0.078	-0.48
delta_Rv3717	0.081	-0.841
delta_Rv3811	0.0	-1.016
delta_Rv0954	0.482	-0.359
PonA1	-0.31	-1.353
EccD1_KO	0.349	0.75
EspI_KO	0.428	0.436
PE35_KO	-0.286	0.295
PPE68_KO	-0.128	0.045
glycerol2	1.75	0.979
lignocerate	0.118	1.218
oleate	-0.998	0.873
phosphatidylcholine	1.45	1.326
acetate	0.587	0.462
glucAc	0.529	0.973
Rv0950ko	-0.084	0.549
Rv1096ko	0.398	0.621
Rv3684ko	0.029	-0.285
delta_otsA_trehalose	0.9	-0.087