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 Rv3217c/-:

update plot	correlation	link to info on gene
Rv3208A/TB9.4	(cc=0.6087)	info on Rv3208A/TB9.4
Rv2212/-	(cc=0.5643)	info on Rv2212/-
Rv1103c/mazE3	(cc=0.5539)	info on Rv1103c/mazE3
Rv2019/-	(cc=0.5449)	info on Rv2019/-
Rv2613c/-	(cc=0.539)	info on Rv2613c/-
Rv2960c/-	(cc=0.5323)	info on Rv2960c/-
Rv2219/-	(cc=0.5315)	info on Rv2219/-
Rv1987/-	(cc=0.5293)	info on Rv1987/-
Rv2237/-	(cc=0.5208)	info on Rv2237/-
Rv2240c/-	(cc=0.5203)	info on Rv2240c/-

Correlation of Rv3217c/- with Rv2019/-

Normalized LFCs for Rv3217c/-:
(description and provenance of datasets)

	Rv3217c/-	Rv2019/-
Fe_supp_jason_reseq	1.552	0.44
low_pH_jason_reseq	0.915	-0.156
NO_jason_reseq	-0.583	-0.013
B6_jason_reseq	3.158	0.823
MHCII_jason_reseq	-1.442	0.456
Isoniazid02	-0.419	0.118
Rifampicin4	0.338	0.325
Ethambutol3	0.015	-0.124
Meropenem3	0.393	0.059
Vancomycin16	0.417	0.273
Rv2680_day32	-2.096	0.594
H37Rv_KO_MarP	0.151	-0.807
hypoxia_3wks	-2.333	-0.845
hypoxia_6wks	-0.451	0.578
glycerol	-2.028	-0.512
cholesterol	-1.607	0.244
AJ	-0.852	-0.373
Bibs02	-3.04	-0.021
Bibs02c	-0.749	-0.635
BL6	1.636	-0.386
BL6a	0.547	-0.093
BXD01	-1.47	-0.498
BXD010	0.088	0.09
BXD011	0.133	0.606
BXD03	0.758	-0.532
BXD04	-0.388	-0.494
BXD05	-0.61	0.324
BXD06	-1.64	0.065
BXD07	-1.73	-0.054
BXD08	-0.643	-0.214
BXD09	-0.847	0.063
CAST	0.614	-0.584
CCcont	0.457	0.671
DS01	-1.167	0.474
DS02	-1.237	0.517
DS04	-1.561	0.822
DS0c	-0.607	-0.702
GP01	1.169	-0.629
GP02	0.881	-0.134
GP0c	0.488	0.009
NOD	-1.38	0.068
NZO	-1.871	-0.046
PWK	-1.115	0.044
H37Rv_KO_CtpC	0.848	0.085
H37Rv_KO_CtpD	1.613	-0.333
H37Rv_KO_Rv1272	0.113	1.223
H37Rv_KO_SugABC	2.251	0.041
H37Rv_KO_MbtN	0.41	1.693
Trans05	0.976	1.087
macrophage_unactivated	-0.988	-0.83
IL1	-0.833	-0.222
Rapamycin	-1.132	0.187
Tcell	-0.811	0.182
GMCSF	-1.663	0.121
IFNab	0.106	0.632
IFNg	-0.583	-0.444
IFNg_GMCSF1	-1.728	-0.468
Rv1432_day32	-0.608	0.055
Rv1565c_day32	-1.275	0.57
secA2_input	-0.332	-1.367
delta_Rv3594	1.253	0.838
delta_Rv3717	0.978	-0.186
delta_Rv3811	1.254	0.697
delta_Rv0954	1.215	-0.151
PonA1	1.588	-0.492
EccD1_KO	1.408	0.927
EspI_KO	1.152	1.03
PE35_KO	-0.23	1.52
PPE68_KO	0.061	1.369
glycerol2	2.081	2.299
lignocerate	3.315	2.763
oleate	0.0	-0.062
phosphatidylcholine	3.084	2.346
acetate	4.414	3.72
glucAc	4.344	2.122
Rv0950ko	0.211	0.748
Rv1096ko	-0.808	-0.461
Rv3684ko	-0.626	-0.196
delta_otsA_trehalose	0.39	0.21