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 Rv3263/-

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

	Rv2092c/helY	Rv3263/-
Fe_supp_jason_reseq	-0.489	-1.905
low_pH_jason_reseq	0.694	-0.959
NO_jason_reseq	1.612	0.837
B6_jason_reseq	0.391	0.922
MHCII_jason_reseq	0.112	-0.43
Isoniazid02	-0.57	-0.489
Rifampicin4	-0.271	0.16
Ethambutol3	0.798	0.758
Meropenem3	-0.842	0.109
Vancomycin16	-0.528	-0.695
Rv2680_day32	-0.387	-0.234
H37Rv_KO_MarP	-0.367	-0.452
hypoxia_3wks	-1.232	-0.247
hypoxia_6wks	-0.507	0.578
glycerol	-0.041	-0.582
cholesterol	-0.037	-0.775
AJ	0.034	-0.21
Bibs02	0.098	-0.609
Bibs02c	-0.243	-0.332
BL6	-0.389	0.115
BL6a	-0.122	-0.258
BXD01	-0.422	0.184
BXD010	0.044	0.337
BXD011	-0.078	1.005
BXD03	-0.265	0.09
BXD04	0.649	0.789
BXD05	-0.323	0.495
BXD06	-0.199	0.821
BXD07	-0.215	0.652
BXD08	0.108	0.599
BXD09	-0.373	0.19
CAST	1.188	1.431
CCcont	-0.873	-1.225
DS01	-0.299	-0.944
DS02	-0.123	-0.731
DS04	-0.202	-0.682
DS0c	-0.426	-1.051
GP01	0.019	0.595
GP02	0.805	0.579
GP0c	-0.059	0.048
NOD	0.391	0.044
NZO	0.172	0.621
PWK	0.669	1.826
H37Rv_KO_CtpC	0.22	1.37
H37Rv_KO_CtpD	-0.058	0.098
H37Rv_KO_Rv1272	0.292	-0.939
H37Rv_KO_SugABC	0.019	0.037
H37Rv_KO_MbtN	-0.075	0.144
Trans05	0.686	0.422
macrophage_unactivated	-0.574	-1.591
IL1	-0.092	0.027
Rapamycin	-0.424	-0.789
Tcell	-0.179	0.469
GMCSF	-0.319	-0.325
IFNab	-0.048	-1.094
IFNg	0.061	0.457
IFNg_GMCSF1	-0.025	0.39
Rv1432_day32	-0.103	1.272
Rv1565c_day32	0.073	-1.303
secA2_input	0.493	0.507
delta_Rv3594	-0.489	0.381
delta_Rv3717	-0.287	0.79
delta_Rv3811	-0.43	0.272
delta_Rv0954	-0.691	0.044
PonA1	-0.762	-0.117
EccD1_KO	0.526	0.467
EspI_KO	0.607	-0.057
PE35_KO	0.05	0.222
PPE68_KO	0.339	0.042
glycerol2	0.055	0.905
lignocerate	0.138	0.463
oleate	-0.155	-0.22
phosphatidylcholine	0.626	1.006
acetate	0.527	-0.12
glucAc	-0.457	0.277
Rv0950ko	-0.051	0.645
Rv1096ko	-0.256	0.193
Rv3684ko	0.082	0.901
delta_otsA_trehalose	0.205	0.021