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 Rv2662/-:

update plot	correlation	link to info on gene
Rv2911/dacB2	(cc=0.4301)	info on Rv2911/dacB2
Rv0516c/-	(cc=0.3774)	info on Rv0516c/-
Rv2148c/-	(cc=0.356)	info on Rv2148c/-
Rv1477/ripA	(cc=0.3539)	info on Rv1477/ripA
Rv3856c/-	(cc=0.3485)	info on Rv3856c/-
Rv1527c/pks5	(cc=0.3478)	info on Rv1527c/pks5
Rv1089/PE10	(cc=0.3455)	info on Rv1089/PE10
Rv0969/ctpV	(cc=0.3432)	info on Rv0969/ctpV
Rv0630c/recB	(cc=0.3416)	info on Rv0630c/recB
Rv1961/-	(cc=0.3411)	info on Rv1961/-

Correlation of Rv2662/- with Rv0516c/-

Normalized LFCs for Rv2662/-:
(description and provenance of datasets)

	Rv2662/-	Rv0516c/-
Fe_supp_jason_reseq	1.86	0.791
low_pH_jason_reseq	-0.547	-0.519
NO_jason_reseq	-0.05	-0.543
B6_jason_reseq	-0.057	0.362
MHCII_jason_reseq	-1.027	-0.18
Isoniazid02	0.009	0.115
Rifampicin4	-0.068	-0.98
Ethambutol3	-0.185	-1.064
Meropenem3	-0.165	-0.409
Vancomycin16	0.684	-1.329
Rv2680_day32	-0.228	0.378
H37Rv_KO_MarP	0.862	-0.741
hypoxia_3wks	-0.124	0.666
hypoxia_6wks	0.077	0.672
glycerol	-0.161	-1.065
cholesterol	-0.61	-0.012
AJ	0.844	0.765
Bibs02	0.984	0.252
Bibs02c	0.556	0.095
BL6	0.161	0.08
BL6a	0.818	0.184
BXD01	-0.368	-0.323
BXD010	0.495	0.662
BXD011	-0.021	-0.146
BXD03	0.093	-0.098
BXD04	-0.511	-0.02
BXD05	1.146	0.041
BXD06	0.218	-0.581
BXD07	-0.015	-0.032
BXD08	0.065	-0.175
BXD09	0.293	-0.21
CAST	-1.086	-0.429
CCcont	0.127	-0.095
DS01	0.84	1.521
DS02	1.084	1.508
DS04	2.195	1.05
DS0c	0.343	1.101
GP01	3.083	0.377
GP02	0.266	1.341
GP0c	1.181	0.277
NOD	-1.261	-0.07
NZO	1.932	1.195
PWK	0.033	0.153
H37Rv_KO_CtpC	0.683	-0.124
H37Rv_KO_CtpD	-0.414	0.019
H37Rv_KO_Rv1272	0.127	0.811
H37Rv_KO_SugABC	0.865	0.982
H37Rv_KO_MbtN	1.546	0.371
Trans05	-0.823	0.874
macrophage_unactivated	1.272	0.357
IL1	0.724	-0.472
Rapamycin	-0.853	-0.325
Tcell	0.274	-0.596
GMCSF	-0.671	-0.515
IFNab	0.889	0.372
IFNg	0.224	-0.588
IFNg_GMCSF1	1.04	-0.104
Rv1432_day32	0.0	0.546
Rv1565c_day32	-1.657	-2.688
secA2_input	0.299	0.593
delta_Rv3594	0.642	0.756
delta_Rv3717	0.922	0.646
delta_Rv3811	0.916	0.796
delta_Rv0954	0.129	0.141
PonA1	-0.669	-0.096
EccD1_KO	0.52	-0.339
EspI_KO	0.111	0.066
PE35_KO	1.698	-0.607
PPE68_KO	2.262	-1.008
glycerol2	0.193	1.267
lignocerate	1.019	1.091
oleate	-2.066	-1.319
phosphatidylcholine	0.258	0.745
acetate	0.289	1.413
glucAc	0.333	0.732
Rv0950ko	0.844	-0.356
Rv1096ko	1.858	0.679
Rv3684ko	1.611	0.498
delta_otsA_trehalose	0.957	-0.949