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 Rv2123/PPE37:

update plot	correlation	link to info on gene
Rv1527c/pks5	(cc=0.534)	info on Rv1527c/pks5
Rv1818c/PE_PGRS33	(cc=0.5296)	info on Rv1818c/PE_PGRS33
Rv1834/lipZ	(cc=0.5206)	info on Rv1834/lipZ
Rv1894c/-	(cc=0.516)	info on Rv1894c/-
Rv0577/TB27.3	(cc=0.5093)	info on Rv0577/TB27.3
Rv1735c/-	(cc=0.5002)	info on Rv1735c/-
Rv3897c/-	(cc=0.497)	info on Rv3897c/-
Rv2489c/-	(cc=0.4832)	info on Rv2489c/-
Rv2742c/-	(cc=0.4749)	info on Rv2742c/-
Rv2741/PE_PGRS47	(cc=0.4707)	info on Rv2741/PE_PGRS47

Correlation of Rv2123/PPE37 with Rv2742c/-

Normalized LFCs for Rv2123/PPE37:
(description and provenance of datasets)

	Rv2123/PPE37	Rv2742c/-
Fe_supp_jason_reseq	-0.702	-0.242
low_pH_jason_reseq	-0.51	-0.281
NO_jason_reseq	0.05	0.286
B6_jason_reseq	-0.184	0.417
MHCII_jason_reseq	0.434	0.158
Isoniazid02	-0.3	-1.627
Rifampicin4	0.333	0.536
Ethambutol3	-0.531	-0.933
Meropenem3	1.005	-0.29
Vancomycin16	-0.334	-0.478
Rv2680_day32	0.916	0.714
H37Rv_KO_MarP	-0.241	0.33
hypoxia_3wks	-0.056	-0.347
hypoxia_6wks	0.535	0.136
glycerol	0.083	0.635
cholesterol	-0.583	-0.338
AJ	0.24	0.2
Bibs02	-0.951	-0.224
Bibs02c	0.685	0.006
BL6	-0.332	-0.016
BL6a	0.485	-0.61
BXD01	-0.102	-0.835
BXD010	-0.795	-0.44
BXD011	-0.31	-0.262
BXD03	0.044	-0.132
BXD04	-0.825	-0.845
BXD05	-0.218	-0.588
BXD06	-0.116	-0.269
BXD07	-0.146	-0.185
BXD08	-0.045	-0.035
BXD09	-0.149	-0.656
CAST	0.39	0.095
CCcont	-0.601	-0.595
DS01	0.209	-0.289
DS02	0.274	-0.197
DS04	1.183	0.162
DS0c	0.071	-0.446
GP01	0.921	1.056
GP02	0.723	1.149
GP0c	0.618	0.194
NOD	0.444	0.234
NZO	0.129	-0.273
PWK	-0.189	0.134
H37Rv_KO_CtpC	-0.201	-0.075
H37Rv_KO_CtpD	-0.406	-0.169
H37Rv_KO_Rv1272	0.546	0.253
H37Rv_KO_SugABC	0.492	0.771
H37Rv_KO_MbtN	-0.428	0.083
Trans05	0.404	-0.38
macrophage_unactivated	-0.48	-0.606
IL1	-0.581	-0.415
Rapamycin	-0.792	-0.5
Tcell	-0.544	-0.762
GMCSF	0.333	0.436
IFNab	-0.121	-0.653
IFNg	-0.732	0.291
IFNg_GMCSF1	-0.082	0.386
Rv1432_day32	0.145	0.349
Rv1565c_day32	0.021	-1.193
secA2_input	0.614	-0.095
delta_Rv3594	0.6	0.564
delta_Rv3717	0.401	0.804
delta_Rv3811	0.134	0.748
delta_Rv0954	0.05	0.279
PonA1	1.192	0.256
EccD1_KO	1.131	0.681
EspI_KO	0.428	0.607
PE35_KO	0.306	0.303
PPE68_KO	0.41	-0.211
glycerol2	0.195	0.441
lignocerate	0.404	0.661
oleate	0.238	0.343
phosphatidylcholine	0.373	0.49
acetate	0.027	0.475
glucAc	0.188	0.793
Rv0950ko	1.04	-0.154
Rv1096ko	1.074	-0.425
Rv3684ko	0.095	-0.321
delta_otsA_trehalose	0.596	-0.212