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 Rv2656c/-

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

	Rv2092c/helY	Rv2656c/-
Fe_supp_jason_reseq	-0.489	-0.043
low_pH_jason_reseq	0.694	0.045
NO_jason_reseq	1.612	1.738
B6_jason_reseq	0.391	1.599
MHCII_jason_reseq	0.112	0.99
Isoniazid02	-0.57	0.354
Rifampicin4	-0.271	0.39
Ethambutol3	0.798	2.977
Meropenem3	-0.842	0.139
Vancomycin16	-0.528	0.04
Rv2680_day32	-0.387	0.658
H37Rv_KO_MarP	-0.367	0.107
hypoxia_3wks	-1.232	-0.801
hypoxia_6wks	-0.507	0.121
glycerol	-0.041	1.04
cholesterol	-0.037	0.209
AJ	0.034	1.768
Bibs02	0.098	0.042
Bibs02c	-0.243	-0.221
BL6	-0.389	0.18
BL6a	-0.122	0.573
BXD01	-0.422	1.882
BXD010	0.044	1.409
BXD011	-0.078	2.756
BXD03	-0.265	1.517
BXD04	0.649	2.194
BXD05	-0.323	2.084
BXD06	-0.199	1.44
BXD07	-0.215	1.547
BXD08	0.108	1.072
BXD09	-0.373	1.736
CAST	1.188	3.48
CCcont	-0.873	0.606
DS01	-0.299	0.108
DS02	-0.123	0.099
DS04	-0.202	1.158
DS0c	-0.426	1.023
GP01	0.019	-0.707
GP02	0.805	-1.661
GP0c	-0.059	-0.291
NOD	0.391	1.103
NZO	0.172	1.699
PWK	0.669	1.8
H37Rv_KO_CtpC	0.22	2.318
H37Rv_KO_CtpD	-0.058	1.646
H37Rv_KO_Rv1272	0.292	1.626
H37Rv_KO_SugABC	0.019	1.237
H37Rv_KO_MbtN	-0.075	-0.55
Trans05	0.686	2.493
macrophage_unactivated	-0.574	0.347
IL1	-0.092	1.593
Rapamycin	-0.424	0.534
Tcell	-0.179	0.541
GMCSF	-0.319	0.158
IFNab	-0.048	1.058
IFNg	0.061	1.371
IFNg_GMCSF1	-0.025	1.207
Rv1432_day32	-0.103	0.207
Rv1565c_day32	0.073	0.054
secA2_input	0.493	1.119
delta_Rv3594	-0.489	-0.974
delta_Rv3717	-0.287	-1.013
delta_Rv3811	-0.43	-1.423
delta_Rv0954	-0.691	-0.204
PonA1	-0.762	-0.652
EccD1_KO	0.526	2.345
EspI_KO	0.607	0.416
PE35_KO	0.05	0.201
PPE68_KO	0.339	1.449
glycerol2	0.055	-0.168
lignocerate	0.138	0.472
oleate	-0.155	-0.841
phosphatidylcholine	0.626	0.123
acetate	0.527	0.806
glucAc	-0.457	0.641
Rv0950ko	-0.051	-0.259
Rv1096ko	-0.256	-1.258
Rv3684ko	0.082	-1.087
delta_otsA_trehalose	0.205	0.114