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 Rv0070c/glyA2

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

	Rv1252c/lprE	Rv0070c/glyA2
Fe_supp_jason_reseq	0.311	-0.096
low_pH_jason_reseq	-0.753	0.514
NO_jason_reseq	0.231	-0.079
B6_jason_reseq	1.197	0.85
MHCII_jason_reseq	0.218	0.547
Isoniazid02	0.076	0.109
Rifampicin4	0.249	-0.636
Ethambutol3	-0.426	1.521
Meropenem3	0.583	-0.393
Vancomycin16	-0.202	-0.172
Rv2680_day32	-1.24	-0.947
H37Rv_KO_MarP	-2.438	0.185
hypoxia_3wks	0.375	-0.459
hypoxia_6wks	0.232	-0.43
glycerol	-2.225	0.099
cholesterol	-1.551	0.112
AJ	-0.622	-0.17
Bibs02	-0.87	0.305
Bibs02c	-1.132	0.65
BL6	1.295	1.125
BL6a	0.314	0.616
BXD01	0.822	0.25
BXD010	0.581	0.407
BXD011	0.773	-0.193
BXD03	0.332	0.711
BXD04	0.297	0.084
BXD05	0.481	0.438
BXD06	0.558	0.583
BXD07	0.756	0.578
BXD08	0.276	0.642
BXD09	0.539	0.457
CAST	0.042	-0.269
CCcont	0.627	0.757
DS01	-0.351	0.27
DS02	0.608	-0.23
DS04	0.833	1.366
DS0c	0.979	0.207
GP01	0.867	1.157
GP02	0.89	0.806
GP0c	0.091	0.354
NOD	-0.955	-0.473
NZO	-0.893	-0.627
PWK	-0.324	0.473
H37Rv_KO_CtpC	0.606	0.455
H37Rv_KO_CtpD	-0.188	0.458
H37Rv_KO_Rv1272	0.77	0.042
H37Rv_KO_SugABC	-0.751	0.728
H37Rv_KO_MbtN	0.034	-0.879
Trans05	0.949	0.114
macrophage_unactivated	-0.161	0.271
IL1	0.356	0.314
Rapamycin	0.261	0.448
Tcell	0.877	0.108
GMCSF	0.045	0.029
IFNab	0.523	0.59
IFNg	0.617	0.115
IFNg_GMCSF1	1.445	0.99
Rv1432_day32	-0.309	0.353
Rv1565c_day32	-0.257	-0.017
secA2_input	0.059	-0.288
delta_Rv3594	-1.063	-1.836
delta_Rv3717	-0.396	-1.057
delta_Rv3811	-0.436	-1.249
delta_Rv0954	-6.0	-1.186
PonA1	-0.298	-0.884
EccD1_KO	-1.204	-0.941
EspI_KO	-1.34	-0.662
PE35_KO	0.204	0.193
PPE68_KO	0.058	-0.259
glycerol2	0.149	0.643
lignocerate	0.636	0.392
oleate	-0.102	0.257
phosphatidylcholine	0.665	0.422
acetate	-0.022	0.733
glucAc	0.071	0.901
Rv0950ko	-0.648	0.507
Rv1096ko	-0.386	1.104
Rv3684ko	-0.056	0.55
delta_otsA_trehalose	-0.23	-0.039