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 Rv0620/galK:

update plot	correlation	link to info on gene
Rv2530A/vapB39	(cc=0.5409)	info on Rv2530A/vapB39
Rv2609c/-	(cc=0.4959)	info on Rv2609c/-
Rv1907c/-	(cc=0.481)	info on Rv1907c/-
Rv1830/-	(cc=0.4661)	info on Rv1830/-
Rv0042c/-	(cc=0.4582)	info on Rv0042c/-
Rv1961/-	(cc=0.4532)	info on Rv1961/-
Rv0602c/tcrA	(cc=0.4494)	info on Rv0602c/tcrA
Rv3395c/-	(cc=0.4477)	info on Rv3395c/-
Rv2657c/-	(cc=0.4467)	info on Rv2657c/-
Rv0124/PE_PGRS2	(cc=0.4403)	info on Rv0124/PE_PGRS2

Correlation of Rv0620/galK with Rv1907c/-

Normalized LFCs for Rv0620/galK:
(description and provenance of datasets)

	Rv0620/galK	Rv1907c/-
Fe_supp_jason_reseq	-3.531	-0.608
low_pH_jason_reseq	-0.1	-0.41
NO_jason_reseq	-0.039	-0.121
B6_jason_reseq	-0.749	-0.581
MHCII_jason_reseq	-0.778	0.0
Isoniazid02	0.154	1.03
Rifampicin4	1.075	0.236
Ethambutol3	3.874	1.12
Meropenem3	0.373	0.231
Vancomycin16	0.048	0.101
Rv2680_day32	0.19	-0.433
H37Rv_KO_MarP	0.181	-0.052
hypoxia_3wks	-1.176	-0.259
hypoxia_6wks	-1.771	-0.219
glycerol	1.774	0.0
cholesterol	-1.049	-0.024
AJ	0.212	0.321
Bibs02	-0.183	-0.346
Bibs02c	0.097	0.15
BL6	-0.337	-1.272
BL6a	-0.198	-0.433
BXD01	0.278	-0.272
BXD010	-0.928	0.301
BXD011	-0.062	-0.719
BXD03	0.0	-0.31
BXD04	0.6	-0.151
BXD05	-0.74	-0.228
BXD06	-0.28	-0.481
BXD07	-0.213	-0.143
BXD08	-0.533	-0.418
BXD09	0.128	-1.029
CAST	2.07	0.075
CCcont	0.633	-0.421
DS01	0.505	0.72
DS02	1.626	0.438
DS04	-0.298	0.951
DS0c	-1.024	0.688
GP01	0.783	-0.187
GP02	0.326	-0.667
GP0c	1.43	0.61
NOD	-0.109	0.407
NZO	-0.799	0.049
PWK	0.091	0.548
H37Rv_KO_CtpC	-0.249	-0.388
H37Rv_KO_CtpD	0.537	0.928
H37Rv_KO_Rv1272	0.881	0.43
H37Rv_KO_SugABC	-0.817	0.592
H37Rv_KO_MbtN	-0.747	-0.145
Trans05	2.405	0.681
macrophage_unactivated	0.35	0.429
IL1	-0.175	-0.047
Rapamycin	-0.773	-0.301
Tcell	0.0	0.052
GMCSF	0.293	-1.716
IFNab	0.336	-1.022
IFNg	1.072	-1.122
IFNg_GMCSF1	0.512	0.776
Rv1432_day32	0.713	0.348
Rv1565c_day32	0.193	0.441
secA2_input	1.655	1.177
delta_Rv3594	1.981	2.291
delta_Rv3717	2.475	0.984
delta_Rv3811	1.387	1.561
delta_Rv0954	1.603	0.561
PonA1	1.556	1.064
EccD1_KO	-1.325	-0.358
EspI_KO	-2.036	0.074
PE35_KO	0.201	0.187
PPE68_KO	0.63	0.589
glycerol2	1.131	1.61
lignocerate	1.712	1.153
oleate	-1.045	0.662
phosphatidylcholine	0.95	1.382
acetate	1.835	2.678
glucAc	1.687	0.964
Rv0950ko	0.748	-0.691
Rv1096ko	1.285	0.85
Rv3684ko	0.285	0.75
delta_otsA_trehalose	0.416	0.684