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 Rv0463/-:

update plot	correlation	link to info on gene
Rv2833c/ugpB	(cc=0.5193)	info on Rv2833c/ugpB
Rv1931c/-	(cc=0.5052)	info on Rv1931c/-
Rv2151c/ftsQ	(cc=0.4516)	info on Rv2151c/ftsQ
Rv2251/-	(cc=0.4489)	info on Rv2251/-
Rv1574/-	(cc=0.4478)	info on Rv1574/-
Rv2620c/-	(cc=0.4382)	info on Rv2620c/-
Rv0318c/-	(cc=0.4317)	info on Rv0318c/-
Rv0494/-	(cc=0.4242)	info on Rv0494/-
Rv0728c/serA2	(cc=0.4207)	info on Rv0728c/serA2
Rv2970A/-	(cc=0.4164)	info on Rv2970A/-

Correlation of Rv0463/- with Rv1931c/-

Normalized LFCs for Rv0463/-:
(description and provenance of datasets)

	Rv0463/-	Rv1931c/-
Fe_supp_jason_reseq	-0.008	-1.699
low_pH_jason_reseq	-0.403	-0.847
NO_jason_reseq	-0.677	-0.675
B6_jason_reseq	-1.18	-1.671
MHCII_jason_reseq	-1.029	-1.984
Isoniazid02	0.274	1.052
Rifampicin4	0.246	0.853
Ethambutol3	0.507	0.929
Meropenem3	1.163	1.543
Vancomycin16	0.992	0.462
Rv2680_day32	0.272	1.209
H37Rv_KO_MarP	0.612	0.247
hypoxia_3wks	-0.666	0.219
hypoxia_6wks	-0.15	0.906
glycerol	-0.413	-0.695
cholesterol	-1.723	-0.875
AJ	-1.213	0.923
Bibs02	0.762	1.008
Bibs02c	1.006	2.293
BL6	0.576	0.754
BL6a	0.428	2.428
BXD01	0.418	1.055
BXD010	-0.866	1.486
BXD011	0.7	0.473
BXD03	-0.718	1.704
BXD04	0.113	0.814
BXD05	0.048	1.639
BXD06	-0.146	1.325
BXD07	0.137	1.853
BXD08	0.201	0.276
BXD09	0.128	0.722
CAST	-0.022	0.596
CCcont	1.167	0.942
DS01	-0.2	1.23
DS02	0.124	1.448
DS04	-1.698	0.143
DS0c	-1.103	-0.492
GP01	-1.374	-0.412
GP02	-1.038	0.721
GP0c	-0.652	-1.561
NOD	-1.077	0.321
NZO	0.416	0.393
PWK	-0.091	-1.056
H37Rv_KO_CtpC	0.014	-1.398
H37Rv_KO_CtpD	-0.982	-0.984
H37Rv_KO_Rv1272	-0.169	-0.233
H37Rv_KO_SugABC	-1.953	-1.692
H37Rv_KO_MbtN	-0.343	1.734
Trans05	1.108	0.127
macrophage_unactivated	0.565	0.685
IL1	1.026	1.133
Rapamycin	0.654	1.381
Tcell	1.144	0.443
GMCSF	1.141	0.903
IFNab	1.022	1.294
IFNg	1.053	0.262
IFNg_GMCSF1	0.305	0.817
Rv1432_day32	-0.43	-0.18
Rv1565c_day32	-0.144	0.302
secA2_input	-0.601	-3.849
delta_Rv3594	-1.196	-1.395
delta_Rv3717	-1.763	-1.899
delta_Rv3811	-0.971	-1.89
delta_Rv0954	-0.994	-2.439
PonA1	-1.825	-0.891
EccD1_KO	-0.335	-0.365
EspI_KO	0.927	-1.035
PE35_KO	0.808	0.58
PPE68_KO	0.064	1.392
glycerol2	0.977	0.701
lignocerate	0.718	0.633
oleate	0.217	1.377
phosphatidylcholine	0.462	0.811
acetate	0.903	0.183
glucAc	0.123	-0.03
Rv0950ko	1.309	0.069
Rv1096ko	0.214	-0.449
Rv3684ko	-0.449	-0.488
delta_otsA_trehalose	-1.296	0.204