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 Rv3678c/-

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

	Rv2251/-	Rv3678c/-
Fe_supp_jason_reseq	-1.446	0.276
low_pH_jason_reseq	-0.477	-0.507
NO_jason_reseq	-0.953	-0.525
B6_jason_reseq	-0.158	-1.11
MHCII_jason_reseq	-2.294	-1.537
Isoniazid02	1.542	0.089
Rifampicin4	-0.406	-0.428
Ethambutol3	0.752	0.564
Meropenem3	-0.827	0.288
Vancomycin16	0.053	0.406
Rv2680_day32	-0.41	-1.062
H37Rv_KO_MarP	-0.744	0.586
hypoxia_3wks	-1.483	-0.754
hypoxia_6wks	-0.388	-1.47
glycerol	0.252	2.127
cholesterol	0.0	0.363
AJ	-1.106	-0.183
Bibs02	-0.082	-2.816
Bibs02c	0.261	-2.026
BL6	-0.156	0.258
BL6a	-0.606	-1.616
BXD01	-0.058	-0.469
BXD010	-0.118	-1.107
BXD011	0.192	-0.791
BXD03	0.498	-0.107
BXD04	0.742	1.351
BXD05	-0.522	-0.029
BXD06	-0.307	-0.883
BXD07	-0.084	0.015
BXD08	0.039	-0.343
BXD09	-0.67	-0.464
CAST	-0.487	-1.255
CCcont	0.64	0.883
DS01	-2.678	-1.711
DS02	-0.707	-0.958
DS04	0.365	-1.827
DS0c	-1.953	-2.563
GP01	-2.023	-2.063
GP02	-1.546	-1.967
GP0c	-2.113	-0.757
NOD	1.438	-1.726
NZO	0.197	-1.05
PWK	0.166	-1.069
H37Rv_KO_CtpC	-0.286	0.393
H37Rv_KO_CtpD	-0.76	-1.159
H37Rv_KO_Rv1272	-0.431	-1.084
H37Rv_KO_SugABC	-1.681	-1.393
H37Rv_KO_MbtN	-0.491	-1.253
Trans05	0.383	-1.004
macrophage_unactivated	0.909	1.203
IL1	1.563	0.771
Rapamycin	2.13	0.669
Tcell	0.583	0.368
GMCSF	2.001	1.516
IFNab	0.187	1.633
IFNg	1.71	3.156
IFNg_GMCSF1	1.115	1.433
Rv1432_day32	0.0	-1.315
Rv1565c_day32	-1.205	0.959
secA2_input	1.565	0.916
delta_Rv3594	-0.777	-1.1
delta_Rv3717	-1.447	-1.182
delta_Rv3811	-1.328	-1.298
delta_Rv0954	0.266	-0.379
PonA1	-2.608	-0.021
EccD1_KO	1.684	0.95
EspI_KO	1.914	-0.91
PE35_KO	2.007	-0.096
PPE68_KO	1.872	-0.291
glycerol2	-1.253	-0.231
lignocerate	-0.638	-0.353
oleate	-1.44	-1.974
phosphatidylcholine	-1.057	-0.406
acetate	-1.968	-1.716
glucAc	-0.795	-0.557
Rv0950ko	1.478	-0.504
Rv1096ko	0.76	-0.504
Rv3684ko	1.189	-2.03
delta_otsA_trehalose	-1.612	0.447