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 Rv1987/-

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

	Rv3217c/-	Rv1987/-
Fe_supp_jason_reseq	1.552	0.813
low_pH_jason_reseq	0.915	-0.965
NO_jason_reseq	-0.583	-0.761
B6_jason_reseq	3.158	0.082
MHCII_jason_reseq	-1.442	-0.367
Isoniazid02	-0.419	-0.346
Rifampicin4	0.338	-0.709
Ethambutol3	0.015	-0.343
Meropenem3	0.393	-0.765
Vancomycin16	0.417	-0.053
Rv2680_day32	-2.096	0.985
H37Rv_KO_MarP	0.151	-0.008
hypoxia_3wks	-2.333	-1.025
hypoxia_6wks	-0.451	-0.265
glycerol	-2.028	-0.933
cholesterol	-1.607	-0.517
AJ	-0.852	-0.679
Bibs02	-3.04	0.878
Bibs02c	-0.749	0.697
BL6	1.636	0.885
BL6a	0.547	0.422
BXD01	-1.47	0.19
BXD010	0.088	0.059
BXD011	0.133	0.262
BXD03	0.758	0.478
BXD04	-0.388	0.068
BXD05	-0.61	0.698
BXD06	-1.64	0.355
BXD07	-1.73	0.167
BXD08	-0.643	0.438
BXD09	-0.847	0.363
CAST	0.614	-0.289
CCcont	0.457	1.188
DS01	-1.167	0.183
DS02	-1.237	-0.072
DS04	-1.561	0.572
DS0c	-0.607	-0.083
GP01	1.169	0.187
GP02	0.881	-0.69
GP0c	0.488	-0.935
NOD	-1.38	-0.295
NZO	-1.871	-0.767
PWK	-1.115	-0.163
H37Rv_KO_CtpC	0.848	0.154
H37Rv_KO_CtpD	1.613	1.731
H37Rv_KO_Rv1272	0.113	0.848
H37Rv_KO_SugABC	2.251	1.386
H37Rv_KO_MbtN	0.41	-0.315
Trans05	0.976	0.03
macrophage_unactivated	-0.988	0.265
IL1	-0.833	0.409
Rapamycin	-1.132	0.69
Tcell	-0.811	-0.541
GMCSF	-1.663	0.393
IFNab	0.106	0.242
IFNg	-0.583	0.398
IFNg_GMCSF1	-1.728	0.795
Rv1432_day32	-0.608	0.194
Rv1565c_day32	-1.275	0.117
secA2_input	-0.332	-0.418
delta_Rv3594	1.253	1.086
delta_Rv3717	0.978	0.703
delta_Rv3811	1.254	0.747
delta_Rv0954	1.215	1.417
PonA1	1.588	-0.212
EccD1_KO	1.408	-0.615
EspI_KO	1.152	-0.331
PE35_KO	-0.23	-0.079
PPE68_KO	0.061	0.214
glycerol2	2.081	2.285
lignocerate	3.315	2.814
oleate	0.0	-1.163
phosphatidylcholine	3.084	2.129
acetate	4.414	2.72
glucAc	4.344	2.553
Rv0950ko	0.211	0.033
Rv1096ko	-0.808	-0.549
Rv3684ko	-0.626	-0.416
delta_otsA_trehalose	0.39	0.021