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 Rv3099c/-

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

	Rv1252c/lprE	Rv3099c/-
Fe_supp_jason_reseq	0.311	0.429
low_pH_jason_reseq	-0.753	0.248
NO_jason_reseq	0.231	0.69
B6_jason_reseq	1.197	-0.373
MHCII_jason_reseq	0.218	-1.044
Isoniazid02	0.076	-0.493
Rifampicin4	0.249	-0.276
Ethambutol3	-0.426	-0.056
Meropenem3	0.583	-0.122
Vancomycin16	-0.202	0.119
Rv2680_day32	-1.24	-0.169
H37Rv_KO_MarP	-2.438	-0.806
hypoxia_3wks	0.375	0.263
hypoxia_6wks	0.232	-0.311
glycerol	-2.225	-0.824
cholesterol	-1.551	-2.421
AJ	-0.622	0.188
Bibs02	-0.87	-1.021
Bibs02c	-1.132	0.994
BL6	1.295	1.812
BL6a	0.314	1.372
BXD01	0.822	0.971
BXD010	0.581	1.313
BXD011	0.773	1.081
BXD03	0.332	1.662
BXD04	0.297	1.988
BXD05	0.481	1.222
BXD06	0.558	1.336
BXD07	0.756	1.257
BXD08	0.276	1.656
BXD09	0.539	1.495
CAST	0.042	-0.31
CCcont	0.627	1.195
DS01	-0.351	-0.855
DS02	0.608	-0.6
DS04	0.833	1.096
DS0c	0.979	0.511
GP01	0.867	-0.17
GP02	0.89	1.275
GP0c	0.091	-0.239
NOD	-0.955	-0.652
NZO	-0.893	0.143
PWK	-0.324	1.293
H37Rv_KO_CtpC	0.606	0.927
H37Rv_KO_CtpD	-0.188	0.232
H37Rv_KO_Rv1272	0.77	0.563
H37Rv_KO_SugABC	-0.751	2.301
H37Rv_KO_MbtN	0.034	-0.329
Trans05	0.949	1.313
macrophage_unactivated	-0.161	1.515
IL1	0.356	0.43
Rapamycin	0.261	0.583
Tcell	0.877	0.59
GMCSF	0.045	-0.425
IFNab	0.523	1.082
IFNg	0.617	0.027
IFNg_GMCSF1	1.445	1.483
Rv1432_day32	-0.309	1.031
Rv1565c_day32	-0.257	-0.049
secA2_input	0.059	-0.787
delta_Rv3594	-1.063	0.696
delta_Rv3717	-0.396	0.512
delta_Rv3811	-0.436	-1.129
delta_Rv0954	-6.0	-0.842
PonA1	-0.298	0.278
EccD1_KO	-1.204	-0.756
EspI_KO	-1.34	-0.268
PE35_KO	0.204	-0.995
PPE68_KO	0.058	-1.216
glycerol2	0.149	-0.146
lignocerate	0.636	-0.134
oleate	-0.102	0.539
phosphatidylcholine	0.665	0.192
acetate	-0.022	-0.643
glucAc	0.071	-0.566
Rv0950ko	-0.648	-0.63
Rv1096ko	-0.386	-0.603
Rv3684ko	-0.056	0.259
delta_otsA_trehalose	-0.23	-0.608