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 Rv2092c/helY:

update plot	correlation	link to info on gene
Rv0830/-	(cc=0.4855)	info on Rv0830/-
Rv2118c/-	(cc=0.4735)	info on Rv2118c/-
Rv1691/-	(cc=0.4524)	info on Rv1691/-
Rv0158/-	(cc=0.4461)	info on Rv0158/-
Rv2786c/ribF	(cc=0.4319)	info on Rv2786c/ribF
Rv2723/-	(cc=0.4293)	info on Rv2723/-
Rv2656c/-	(cc=0.4248)	info on Rv2656c/-
Rv1901/cinA	(cc=0.4225)	info on Rv1901/cinA
Rv3434c/-	(cc=0.4191)	info on Rv3434c/-
Rv3263/-	(cc=0.4169)	info on Rv3263/-

Correlation of Rv2092c/helY with Rv0830/-

Normalized LFCs for Rv2092c/helY:
(description and provenance of datasets)

	Rv2092c/helY	Rv0830/-
Fe_supp_jason_reseq	-0.489	0.148
low_pH_jason_reseq	0.694	-0.279
NO_jason_reseq	1.612	0.357
B6_jason_reseq	0.391	0.739
MHCII_jason_reseq	0.112	0.519
Isoniazid02	-0.57	-1.003
Rifampicin4	-0.271	0.417
Ethambutol3	0.798	0.027
Meropenem3	-0.842	-0.343
Vancomycin16	-0.528	-0.223
Rv2680_day32	-0.387	0.08
H37Rv_KO_MarP	-0.367	0.042
hypoxia_3wks	-1.232	-0.435
hypoxia_6wks	-0.507	-0.159
glycerol	-0.041	-0.859
cholesterol	-0.037	-0.552
AJ	0.034	0.481
Bibs02	0.098	0.367
Bibs02c	-0.243	0.202
BL6	-0.389	0.037
BL6a	-0.122	0.141
BXD01	-0.422	0.167
BXD010	0.044	-0.117
BXD011	-0.078	-0.097
BXD03	-0.265	-0.453
BXD04	0.649	-0.127
BXD05	-0.323	0.288
BXD06	-0.199	-0.154
BXD07	-0.215	-0.126
BXD08	0.108	0.018
BXD09	-0.373	-0.004
CAST	1.188	0.21
CCcont	-0.873	-0.295
DS01	-0.299	-0.258
DS02	-0.123	0.274
DS04	-0.202	-0.103
DS0c	-0.426	0.204
GP01	0.019	0.444
GP02	0.805	1.298
GP0c	-0.059	-0.138
NOD	0.391	0.205
NZO	0.172	0.285
PWK	0.669	0.459
H37Rv_KO_CtpC	0.22	0.477
H37Rv_KO_CtpD	-0.058	0.225
H37Rv_KO_Rv1272	0.292	0.56
H37Rv_KO_SugABC	0.019	0.499
H37Rv_KO_MbtN	-0.075	-0.078
Trans05	0.686	0.684
macrophage_unactivated	-0.574	0.237
IL1	-0.092	-0.564
Rapamycin	-0.424	-0.292
Tcell	-0.179	0.274
GMCSF	-0.319	0.185
IFNab	-0.048	-0.19
IFNg	0.061	-0.211
IFNg_GMCSF1	-0.025	-0.066
Rv1432_day32	-0.103	0.023
Rv1565c_day32	0.073	0.242
secA2_input	0.493	-0.204
delta_Rv3594	-0.489	-0.341
delta_Rv3717	-0.287	-0.507
delta_Rv3811	-0.43	-0.656
delta_Rv0954	-0.691	-0.682
PonA1	-0.762	-0.446
EccD1_KO	0.526	0.967
EspI_KO	0.607	0.034
PE35_KO	0.05	-0.067
PPE68_KO	0.339	0.643
glycerol2	0.055	0.409
lignocerate	0.138	0.269
oleate	-0.155	0.668
phosphatidylcholine	0.626	0.655
acetate	0.527	-0.136
glucAc	-0.457	-0.005
Rv0950ko	-0.051	0.28
Rv1096ko	-0.256	-0.401
Rv3684ko	0.082	-0.229
delta_otsA_trehalose	0.205	0.579