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 Rv0481c/-:

update plot	correlation	link to info on gene
Rv3367/PE_PGRS51	(cc=0.6395)	info on Rv3367/PE_PGRS51
Rv0359/-	(cc=0.5913)	info on Rv0359/-
Rv1843c/guaB1	(cc=0.589)	info on Rv1843c/guaB1
Rv3401/-	(cc=0.5851)	info on Rv3401/-
Rv0435c/-	(cc=0.582)	info on Rv0435c/-
Rv3471c/-	(cc=0.5721)	info on Rv3471c/-
Rv0648/-	(cc=0.5597)	info on Rv0648/-
Rv2490c/PE_PGRS43	(cc=0.5592)	info on Rv2490c/PE_PGRS43
Rv0080/-	(cc=0.5545)	info on Rv0080/-
Rv0203/-	(cc=0.5542)	info on Rv0203/-

Correlation of Rv0481c/- with Rv0359/-

Normalized LFCs for Rv0481c/-:
(description and provenance of datasets)

	Rv0481c/-	Rv0359/-
Fe_supp_jason_reseq	-0.313	0.095
low_pH_jason_reseq	-0.597	-1.012
NO_jason_reseq	0.158	0.837
B6_jason_reseq	1.168	0.692
MHCII_jason_reseq	1.121	1.3
Isoniazid02	0.792	0.764
Rifampicin4	0.0	0.097
Ethambutol3	0.558	0.086
Meropenem3	0.182	0.109
Vancomycin16	-0.239	-0.17
Rv2680_day32	-0.113	-0.023
H37Rv_KO_MarP	0.677	0.272
hypoxia_3wks	-0.259	-0.12
hypoxia_6wks	-0.338	-0.079
glycerol	1.186	0.453
cholesterol	0.775	-0.176
AJ	0.538	0.363
Bibs02	0.411	0.277
Bibs02c	0.415	0.053
BL6	-1.194	-0.976
BL6a	-0.531	-0.726
BXD01	-1.312	-0.705
BXD010	-1.31	-0.867
BXD011	-0.663	-0.706
BXD03	-1.036	-1.073
BXD04	-0.591	-1.555
BXD05	-1.108	-1.302
BXD06	-0.875	-1.334
BXD07	-0.931	-1.084
BXD08	-0.971	-1.029
BXD09	-1.291	-1.134
CAST	0.672	0.657
CCcont	-1.173	-1.909
DS01	0.756	0.53
DS02	0.696	0.485
DS04	0.517	0.111
DS0c	0.006	0.528
GP01	-0.041	0.353
GP02	-0.177	0.863
GP0c	-0.77	-0.377
NOD	0.635	0.135
NZO	1.124	0.097
PWK	0.404	0.115
H37Rv_KO_CtpC	-1.256	-1.181
H37Rv_KO_CtpD	0.874	-0.874
H37Rv_KO_Rv1272	0.037	-1.584
H37Rv_KO_SugABC	0.618	-0.397
H37Rv_KO_MbtN	-0.133	-0.62
Trans05	-0.31	-0.053
macrophage_unactivated	-0.742	-2.093
IL1	0.264	-1.848
Rapamycin	-0.875	-1.393
Tcell	-0.701	-1.092
GMCSF	0.57	-1.09
IFNab	-0.535	-2.053
IFNg	-0.957	-1.05
IFNg_GMCSF1	0.33	-0.594
Rv1432_day32	2.15	0.786
Rv1565c_day32	-0.768	-0.547
secA2_input	0.258	0.38
delta_Rv3594	0.288	-1.115
delta_Rv3717	-0.427	0.013
delta_Rv3811	0.199	-1.166
delta_Rv0954	0.236	-0.841
PonA1	0.342	-0.262
EccD1_KO	-0.135	0.062
EspI_KO	-0.183	0.054
PE35_KO	-1.438	-0.747
PPE68_KO	-1.267	-0.982
glycerol2	-1.03	-0.053
lignocerate	-0.598	-0.349
oleate	-1.438	0.023
phosphatidylcholine	-1.179	-0.038
acetate	0.09	-0.72
glucAc	0.056	-0.134
Rv0950ko	0.492	0.597
Rv1096ko	0.293	0.881
Rv3684ko	0.956	0.648
delta_otsA_trehalose	-0.716	-2.016