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 Rv0912/-

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

	Rv1252c/lprE	Rv0912/-
Fe_supp_jason_reseq	0.311	1.23
low_pH_jason_reseq	-0.753	-0.716
NO_jason_reseq	0.231	-2.145
B6_jason_reseq	1.197	-1.293
MHCII_jason_reseq	0.218	1.3
Isoniazid02	0.076	1.927
Rifampicin4	0.249	1.026
Ethambutol3	-0.426	-0.261
Meropenem3	0.583	0.715
Vancomycin16	-0.202	1.239
Rv2680_day32	-1.24	1.974
H37Rv_KO_MarP	-2.438	-1.29
hypoxia_3wks	0.375	0.1
hypoxia_6wks	0.232	-0.555
glycerol	-2.225	0.638
cholesterol	-1.551	0.719
AJ	-0.622	0.313
Bibs02	-0.87	-1.44
Bibs02c	-1.132	-1.647
BL6	1.295	2.355
BL6a	0.314	0.405
BXD01	0.822	1.431
BXD010	0.581	0.86
BXD011	0.773	0.026
BXD03	0.332	-1.254
BXD04	0.297	0.705
BXD05	0.481	1.693
BXD06	0.558	0.249
BXD07	0.756	1.32
BXD08	0.276	0.249
BXD09	0.539	0.214
CAST	0.042	-1.278
CCcont	0.627	1.774
DS01	-0.351	-0.099
DS02	0.608	0.129
DS04	0.833	-0.883
DS0c	0.979	2.305
GP01	0.867	2.025
GP02	0.89	3.073
GP0c	0.091	2.29
NOD	-0.955	-0.63
NZO	-0.893	-0.845
PWK	-0.324	0.078
H37Rv_KO_CtpC	0.606	1.494
H37Rv_KO_CtpD	-0.188	3.216
H37Rv_KO_Rv1272	0.77	1.694
H37Rv_KO_SugABC	-0.751	-1.2
H37Rv_KO_MbtN	0.034	0.211
Trans05	0.949	0.615
macrophage_unactivated	-0.161	2.383
IL1	0.356	1.824
Rapamycin	0.261	0.915
Tcell	0.877	-0.049
GMCSF	0.045	1.97
IFNab	0.523	1.708
IFNg	0.617	1.227
IFNg_GMCSF1	1.445	0.273
Rv1432_day32	-0.309	0.875
Rv1565c_day32	-0.257	0.0
secA2_input	0.059	-0.238
delta_Rv3594	-1.063	-0.154
delta_Rv3717	-0.396	-0.038
delta_Rv3811	-0.436	-0.863
delta_Rv0954	-6.0	-3.64
PonA1	-0.298	-1.319
EccD1_KO	-1.204	-0.125
EspI_KO	-1.34	-0.163
PE35_KO	0.204	-0.195
PPE68_KO	0.058	-0.374
glycerol2	0.149	0.036
lignocerate	0.636	-0.144
oleate	-0.102	-0.485
phosphatidylcholine	0.665	-0.151
acetate	-0.022	-0.662
glucAc	0.071	-0.308
Rv0950ko	-0.648	0.0
Rv1096ko	-0.386	1.279
Rv3684ko	-0.056	2.414
delta_otsA_trehalose	-0.23	0.678