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 Rv2898c/-:

update plot	correlation	link to info on gene
Rv3411c/guaB2	(cc=0.4892)	info on Rv3411c/guaB2
Rv3696c/glpK	(cc=0.4577)	info on Rv3696c/glpK
Rv2750/-	(cc=0.4429)	info on Rv2750/-
Rv2655c/-	(cc=0.4409)	info on Rv2655c/-
Rv0526/-	(cc=0.4319)	info on Rv0526/-
Rv2169c/-	(cc=0.4306)	info on Rv2169c/-
Rv3475/-	(cc=0.4303)	info on Rv3475/-
Rv2615c/PE_PGRS45	(cc=0.4185)	info on Rv2615c/PE_PGRS45
Rv2489c/-	(cc=0.4122)	info on Rv2489c/-
Rv3187/-	(cc=0.412)	info on Rv3187/-

Correlation of Rv2898c/- with Rv2489c/-

Normalized LFCs for Rv2898c/-:
(description and provenance of datasets)

	Rv2898c/-	Rv2489c/-
Fe_supp_jason_reseq	-1.514	-1.013
low_pH_jason_reseq	-1.066	-1.445
NO_jason_reseq	-0.522	-0.081
B6_jason_reseq	-1.384	0.492
MHCII_jason_reseq	0.282	-0.589
Isoniazid02	-0.455	-1.867
Rifampicin4	-1.668	-0.068
Ethambutol3	-1.216	-1.887
Meropenem3	-1.744	-2.193
Vancomycin16	-1.122	-1.143
Rv2680_day32	-0.947	1.99
H37Rv_KO_MarP	0.635	-0.082
hypoxia_3wks	1.316	-0.02
hypoxia_6wks	1.957	-0.393
glycerol	0.929	-0.753
cholesterol	-0.582	-0.125
AJ	3.511	0.824
Bibs02	1.71	-0.347
Bibs02c	-2.099	-0.271
BL6	-2.023	-0.412
BL6a	-0.93	-0.682
BXD01	-1.384	-0.975
BXD010	1.412	-0.612
BXD011	0.325	-1.558
BXD03	-0.5	-1.984
BXD04	-0.457	-1.492
BXD05	-0.061	-0.694
BXD06	0.058	-0.229
BXD07	-1.237	-1.118
BXD08	0.649	-1.045
BXD09	-0.274	-1.074
CAST	0.627	0.831
CCcont	-2.416	-1.79
DS01	0.152	0.527
DS02	-1.624	0.548
DS04	3.064	1.113
DS0c	0.047	0.806
GP01	-1.498	0.343
GP02	-1.346	0.134
GP0c	-1.031	-0.899
NOD	0.573	1.015
NZO	3.55	0.523
PWK	6.0	0.789
H37Rv_KO_CtpC	-0.879	-0.744
H37Rv_KO_CtpD	-1.701	0.098
H37Rv_KO_Rv1272	-0.032	-0.94
H37Rv_KO_SugABC	-0.885	-0.572
H37Rv_KO_MbtN	-1.471	-1.755
Trans05	-1.654	-0.055
macrophage_unactivated	-1.566	-2.276
IL1	-0.765	-1.605
Rapamycin	-0.697	-2.029
Tcell	0.857	-1.812
GMCSF	-1.946	-1.447
IFNab	-0.877	-1.342
IFNg	-1.326	-0.837
IFNg_GMCSF1	-1.559	-1.348
Rv1432_day32	0.0	-0.877
Rv1565c_day32	-1.829	-0.351
secA2_input	1.263	-0.474
delta_Rv3594	-1.046	0.824
delta_Rv3717	0.313	1.156
delta_Rv3811	-0.351	0.346
delta_Rv0954	-0.827	0.933
PonA1	-0.511	1.528
EccD1_KO	-1.73	0.046
EspI_KO	2.236	0.411
PE35_KO	2.08	-0.061
PPE68_KO	2.281	-0.067
glycerol2	-2.996	-1.67
lignocerate	-1.891	-2.159
oleate	-3.031	-0.788
phosphatidylcholine	-2.801	-1.669
acetate	-3.554	-2.329
glucAc	-2.21	-1.649
Rv0950ko	-0.407	0.808
Rv1096ko	-0.407	0.654
Rv3684ko	-2.358	0.668
delta_otsA_trehalose	2.546	0.635