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 Rv1252c/lprE:

update plot	correlation	link to info on gene
Rv1021/-	(cc=0.5401)	info on Rv1021/-
Rv3670/ephE	(cc=0.4692)	info on Rv3670/ephE
Rv0912/-	(cc=0.458)	info on Rv0912/-
Rv3342/-	(cc=0.4579)	info on Rv3342/-
Rv3267/-	(cc=0.4498)	info on Rv3267/-
Rv2510c/-	(cc=0.4379)	info on Rv2510c/-
Rv1410c/-	(cc=0.437)	info on Rv1410c/-
Rv0070c/glyA2	(cc=0.427)	info on Rv0070c/glyA2
Rv2056c/rpsN2	(cc=0.4221)	info on Rv2056c/rpsN2
Rv3099c/-	(cc=0.419)	info on Rv3099c/-

Correlation of Rv1252c/lprE with Rv2510c/-

Normalized LFCs for Rv1252c/lprE:
(description and provenance of datasets)

	Rv1252c/lprE	Rv2510c/-
Fe_supp_jason_reseq	0.311	-0.36
low_pH_jason_reseq	-0.753	-0.574
NO_jason_reseq	0.231	-0.095
B6_jason_reseq	1.197	-0.465
MHCII_jason_reseq	0.218	-0.321
Isoniazid02	0.076	0.736
Rifampicin4	0.249	-0.677
Ethambutol3	-0.426	-0.102
Meropenem3	0.583	0.255
Vancomycin16	-0.202	-0.133
Rv2680_day32	-1.24	1.553
H37Rv_KO_MarP	-2.438	-0.477
hypoxia_3wks	0.375	0.399
hypoxia_6wks	0.232	0.43
glycerol	-2.225	-0.162
cholesterol	-1.551	-0.057
AJ	-0.622	-0.218
Bibs02	-0.87	0.514
Bibs02c	-1.132	-0.806
BL6	1.295	0.706
BL6a	0.314	0.653
BXD01	0.822	0.287
BXD010	0.581	1.203
BXD011	0.773	0.588
BXD03	0.332	0.722
BXD04	0.297	0.285
BXD05	0.481	1.522
BXD06	0.558	0.774
BXD07	0.756	0.771
BXD08	0.276	0.955
BXD09	0.539	0.783
CAST	0.042	0.359
CCcont	0.627	0.056
DS01	-0.351	-0.395
DS02	0.608	0.11
DS04	0.833	0.746
DS0c	0.979	0.028
GP01	0.867	0.669
GP02	0.89	-0.781
GP0c	0.091	0.416
NOD	-0.955	0.423
NZO	-0.893	0.288
PWK	-0.324	-0.104
H37Rv_KO_CtpC	0.606	0.75
H37Rv_KO_CtpD	-0.188	-0.312
H37Rv_KO_Rv1272	0.77	0.579
H37Rv_KO_SugABC	-0.751	0.73
H37Rv_KO_MbtN	0.034	0.785
Trans05	0.949	1.083
macrophage_unactivated	-0.161	0.107
IL1	0.356	0.658
Rapamycin	0.261	0.681
Tcell	0.877	0.147
GMCSF	0.045	0.428
IFNab	0.523	0.583
IFNg	0.617	0.724
IFNg_GMCSF1	1.445	0.669
Rv1432_day32	-0.309	0.0
Rv1565c_day32	-0.257	0.281
secA2_input	0.059	0.441
delta_Rv3594	-1.063	-1.097
delta_Rv3717	-0.396	-1.004
delta_Rv3811	-0.436	-0.055
delta_Rv0954	-6.0	-1.87
PonA1	-0.298	-1.709
EccD1_KO	-1.204	-0.441
EspI_KO	-1.34	0.046
PE35_KO	0.204	-0.143
PPE68_KO	0.058	0.346
glycerol2	0.149	-0.272
lignocerate	0.636	-0.458
oleate	-0.102	0.118
phosphatidylcholine	0.665	0.073
acetate	-0.022	-0.672
glucAc	0.071	-0.818
Rv0950ko	-0.648	-0.042
Rv1096ko	-0.386	-0.546
Rv3684ko	-0.056	-0.593
delta_otsA_trehalose	-0.23	1.892