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 Rv0069c/sdaA:

update plot	correlation	link to info on gene
Rv0338c/-	(cc=0.7502)	info on Rv0338c/-
Rv0320/-	(cc=0.5463)	info on Rv0320/-
Rv0191/-	(cc=0.4888)	info on Rv0191/-
Rv0373c/-	(cc=0.4568)	info on Rv0373c/-
Rv2189c/-	(cc=0.4479)	info on Rv2189c/-
Rv2715/-	(cc=0.4477)	info on Rv2715/-
Rv3068c/pgmA	(cc=0.4325)	info on Rv3068c/pgmA
Rv2394/ggtB	(cc=0.4302)	info on Rv2394/ggtB
Rv1317c/alkA	(cc=0.4268)	info on Rv1317c/alkA
Rv2073c/-	(cc=0.4251)	info on Rv2073c/-

Correlation of Rv0069c/sdaA with Rv0373c/-

Normalized LFCs for Rv0069c/sdaA:
(description and provenance of datasets)

	Rv0069c/sdaA	Rv0373c/-
Fe_supp_jason_reseq	0.205	-0.676
low_pH_jason_reseq	-1.367	0.775
NO_jason_reseq	-1.265	0.656
B6_jason_reseq	-0.208	-0.535
MHCII_jason_reseq	0.127	-0.119
Isoniazid02	-0.049	-0.31
Rifampicin4	-0.233	-0.276
Ethambutol3	0.627	-0.231
Meropenem3	0.278	1.324
Vancomycin16	0.836	-0.162
Rv2680_day32	-0.372	0.836
H37Rv_KO_MarP	0.217	-0.059
hypoxia_3wks	-0.319	0.307
hypoxia_6wks	-0.299	-0.054
glycerol	2.392	0.391
cholesterol	6.0	5.178
AJ	0.187	-0.261
Bibs02	-0.592	0.126
Bibs02c	0.196	0.611
BL6	0.084	0.106
BL6a	0.307	0.0
BXD01	-0.154	0.213
BXD010	-0.171	0.651
BXD011	0.68	0.319
BXD03	-0.631	-0.352
BXD04	-0.425	-0.163
BXD05	-0.223	0.714
BXD06	-0.038	-0.098
BXD07	-0.207	-0.269
BXD08	0.329	-0.149
BXD09	0.076	-0.158
CAST	-0.976	0.195
CCcont	0.176	0.151
DS01	-0.279	-0.086
DS02	-0.325	-0.039
DS04	-1.036	0.067
DS0c	0.363	0.633
GP01	0.265	0.017
GP02	-0.138	1.31
GP0c	0.639	0.543
NOD	-1.596	0.19
NZO	-1.472	0.069
PWK	0.183	0.82
H37Rv_KO_CtpC	0.213	-0.577
H37Rv_KO_CtpD	-1.75	0.559
H37Rv_KO_Rv1272	-0.72	0.252
H37Rv_KO_SugABC	0.94	0.471
H37Rv_KO_MbtN	1.301	-0.502
Trans05	-0.5	0.515
macrophage_unactivated	0.18	0.357
IL1	0.383	-0.27
Rapamycin	0.807	0.512
Tcell	0.42	-0.196
GMCSF	-0.264	0.298
IFNab	1.167	0.175
IFNg	0.249	0.446
IFNg_GMCSF1	-0.512	-0.386
Rv1432_day32	0.415	-0.505
Rv1565c_day32	-0.355	0.58
secA2_input	1.656	-0.348
delta_Rv3594	-0.783	0.567
delta_Rv3717	-0.2	0.0
delta_Rv3811	0.299	0.0
delta_Rv0954	0.399	-0.168
PonA1	0.943	-0.422
EccD1_KO	0.802	-0.253
EspI_KO	-0.645	-0.451
PE35_KO	0.055	-0.648
PPE68_KO	0.781	-0.573
glycerol2	0.171	-0.171
lignocerate	0.183	-0.149
oleate	-0.264	-0.085
phosphatidylcholine	-0.067	-0.028
acetate	-0.191	0.304
glucAc	-0.249	0.059
Rv0950ko	0.582	-0.338
Rv1096ko	0.582	0.374
Rv3684ko	-0.069	0.468
delta_otsA_trehalose	0.027	-1.609