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 Rv2530A/vapB39

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

	Rv0620/galK	Rv2530A/vapB39
Fe_supp_jason_reseq	-3.531	-1.965
low_pH_jason_reseq	-0.1	0.164
NO_jason_reseq	-0.039	-0.898
B6_jason_reseq	-0.749	0.109
MHCII_jason_reseq	-0.778	-2.36
Isoniazid02	0.154	-0.065
Rifampicin4	1.075	0.726
Ethambutol3	3.874	0.088
Meropenem3	0.373	0.135
Vancomycin16	0.048	0.191
Rv2680_day32	0.19	1.886
H37Rv_KO_MarP	0.181	0.659
hypoxia_3wks	-1.176	-0.833
hypoxia_6wks	-1.771	-0.946
glycerol	1.774	0.544
cholesterol	-1.049	-1.141
AJ	0.212	0.434
Bibs02	-0.183	-1.216
Bibs02c	0.097	-1.234
BL6	-0.337	-0.53
BL6a	-0.198	0.957
BXD01	0.278	-0.264
BXD010	-0.928	-0.228
BXD011	-0.062	0.26
BXD03	0.0	0.157
BXD04	0.6	0.372
BXD05	-0.74	0.542
BXD06	-0.28	-0.836
BXD07	-0.213	-0.058
BXD08	-0.533	-0.738
BXD09	0.128	-0.321
CAST	2.07	1.472
CCcont	0.633	0.118
DS01	0.505	-0.364
DS02	1.626	-0.61
DS04	-0.298	-1.528
DS0c	-1.024	0.292
GP01	0.783	0.059
GP02	0.326	0.402
GP0c	1.43	1.802
NOD	-0.109	0.905
NZO	-0.799	2.461
PWK	0.091	0.763
H37Rv_KO_CtpC	-0.249	-1.018
H37Rv_KO_CtpD	0.537	0.968
H37Rv_KO_Rv1272	0.881	1.467
H37Rv_KO_SugABC	-0.817	-1.588
H37Rv_KO_MbtN	-0.747	-1.183
Trans05	2.405	2.214
macrophage_unactivated	0.35	0.442
IL1	-0.175	0.572
Rapamycin	-0.773	1.642
Tcell	0.0	1.47
GMCSF	0.293	-0.869
IFNab	0.336	0.26
IFNg	1.072	0.649
IFNg_GMCSF1	0.512	0.355
Rv1432_day32	0.713	0.666
Rv1565c_day32	0.193	-1.071
secA2_input	1.655	1.697
delta_Rv3594	1.981	3.775
delta_Rv3717	2.475	2.848
delta_Rv3811	1.387	3.618
delta_Rv0954	1.603	1.026
PonA1	1.556	2.947
EccD1_KO	-1.325	1.523
EspI_KO	-2.036	0.841
PE35_KO	0.201	1.114
PPE68_KO	0.63	0.944
glycerol2	1.131	0.213
lignocerate	1.712	1.381
oleate	-1.045	-2.247
phosphatidylcholine	0.95	0.856
acetate	1.835	1.38
glucAc	1.687	1.61
Rv0950ko	0.748	0.733
Rv1096ko	1.285	2.265
Rv3684ko	0.285	0.521
delta_otsA_trehalose	0.416	-0.437