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 Rv2251/-:

update plot	correlation	link to info on gene
Rv1975/-	(cc=0.4965)	info on Rv1975/-
Rv0845/-	(cc=0.4534)	info on Rv0845/-
Rv2980/-	(cc=0.4528)	info on Rv2980/-
Rv0463/-	(cc=0.4489)	info on Rv0463/-
Rv2250A/-	(cc=0.4446)	info on Rv2250A/-
Rv1234/-	(cc=0.4388)	info on Rv1234/-
Rv3678c/-	(cc=0.4371)	info on Rv3678c/-
Rv2673/aftC	(cc=0.4361)	info on Rv2673/aftC
Rv3141/fadB4	(cc=0.4318)	info on Rv3141/fadB4
Rv3074/-	(cc=0.4239)	info on Rv3074/-

Correlation of Rv2251/- with Rv0845/-

Normalized LFCs for Rv2251/-:
(description and provenance of datasets)

	Rv2251/-	Rv0845/-
Fe_supp_jason_reseq	-1.446	-0.38
low_pH_jason_reseq	-0.477	0.815
NO_jason_reseq	-0.953	-0.41
B6_jason_reseq	-0.158	-0.712
MHCII_jason_reseq	-2.294	-1.227
Isoniazid02	1.542	0.972
Rifampicin4	-0.406	-0.081
Ethambutol3	0.752	0.472
Meropenem3	-0.827	-0.097
Vancomycin16	0.053	0.204
Rv2680_day32	-0.41	-0.313
H37Rv_KO_MarP	-0.744	0.141
hypoxia_3wks	-1.483	-0.088
hypoxia_6wks	-0.388	-0.14
glycerol	0.252	-0.767
cholesterol	0.0	-0.413
AJ	-1.106	0.0
Bibs02	-0.082	0.947
Bibs02c	0.261	0.226
BL6	-0.156	-0.073
BL6a	-0.606	0.426
BXD01	-0.058	0.572
BXD010	-0.118	0.861
BXD011	0.192	0.568
BXD03	0.498	0.445
BXD04	0.742	0.457
BXD05	-0.522	-0.095
BXD06	-0.307	0.223
BXD07	-0.084	0.259
BXD08	0.039	0.392
BXD09	-0.67	0.497
CAST	-0.487	0.537
CCcont	0.64	-0.035
DS01	-2.678	0.349
DS02	-0.707	-0.347
DS04	0.365	0.287
DS0c	-1.953	0.321
GP01	-2.023	-0.119
GP02	-1.546	-1.034
GP0c	-2.113	-1.132
NOD	1.438	0.376
NZO	0.197	1.046
PWK	0.166	0.192
H37Rv_KO_CtpC	-0.286	0.713
H37Rv_KO_CtpD	-0.76	0.797
H37Rv_KO_Rv1272	-0.431	0.65
H37Rv_KO_SugABC	-1.681	0.814
H37Rv_KO_MbtN	-0.491	0.723
Trans05	0.383	1.127
macrophage_unactivated	0.909	1.026
IL1	1.563	0.531
Rapamycin	2.13	0.632
Tcell	0.583	0.202
GMCSF	2.001	1.085
IFNab	0.187	0.187
IFNg	1.71	0.732
IFNg_GMCSF1	1.115	0.0
Rv1432_day32	0.0	0.407
Rv1565c_day32	-1.205	0.379
secA2_input	1.565	-0.369
delta_Rv3594	-0.777	-0.174
delta_Rv3717	-1.447	-0.656
delta_Rv3811	-1.328	0.171
delta_Rv0954	0.266	0.213
PonA1	-2.608	-0.365
EccD1_KO	1.684	0.763
EspI_KO	1.914	0.63
PE35_KO	2.007	0.333
PPE68_KO	1.872	0.288
glycerol2	-1.253	0.025
lignocerate	-0.638	-0.15
oleate	-1.44	0.364
phosphatidylcholine	-1.057	0.025
acetate	-1.968	-0.323
glucAc	-0.795	-0.577
Rv0950ko	1.478	0.033
Rv1096ko	0.76	-0.133
Rv3684ko	1.189	0.141
delta_otsA_trehalose	-1.612	-0.421