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 Rv1246c/relE:

update plot	correlation	link to info on gene
Rv0962c/lprP	(cc=0.4427)	info on Rv0962c/lprP
Rv3688c/-	(cc=0.3932)	info on Rv3688c/-
Rv0476/-	(cc=0.3899)	info on Rv0476/-
Rv1386/PE15	(cc=0.3819)	info on Rv1386/PE15
Rv2321c/rocD2	(cc=0.3769)	info on Rv2321c/rocD2
Rv1425/-	(cc=0.3694)	info on Rv1425/-
Rv2464c/-	(cc=0.369)	info on Rv2464c/-
Rv3007c/-	(cc=0.3689)	info on Rv3007c/-
Rv3539/PPE63	(cc=0.3648)	info on Rv3539/PPE63
Rv2781c/-	(cc=0.3605)	info on Rv2781c/-

Correlation of Rv1246c/relE with Rv3007c/-

Normalized LFCs for Rv1246c/relE:
(description and provenance of datasets)

	Rv1246c/relE	Rv3007c/-
Fe_supp_jason_reseq	0.142	-0.69
low_pH_jason_reseq	0.169	0.136
NO_jason_reseq	0.047	-0.168
B6_jason_reseq	-0.196	0.09
MHCII_jason_reseq	-0.062	0.131
Isoniazid02	-0.191	-0.194
Rifampicin4	-0.62	-0.114
Ethambutol3	-0.384	0.203
Meropenem3	2.003	0.2
Vancomycin16	-0.117	0.199
Rv2680_day32	1.389	0.922
H37Rv_KO_MarP	-0.241	0.691
hypoxia_3wks	1.707	0.267
hypoxia_6wks	1.491	0.113
glycerol	-0.585	0.778
cholesterol	-0.341	0.484
AJ	-0.684	0.619
Bibs02	0.718	0.699
Bibs02c	-1.758	0.153
BL6	-0.598	-0.19
BL6a	-0.551	0.034
BXD01	-0.37	-0.018
BXD010	-0.044	-0.478
BXD011	0.348	0.532
BXD03	-0.422	-0.408
BXD04	1.135	0.008
BXD05	0.593	0.705
BXD06	0.386	0.19
BXD07	-0.297	-0.019
BXD08	0.283	0.208
BXD09	-0.018	0.152
CAST	-0.447	0.596
CCcont	-0.571	-0.048
DS01	-0.252	-0.169
DS02	-0.252	-0.091
DS04	-0.225	0.35
DS0c	0.053	0.228
GP01	0.009	-0.031
GP02	1.293	0.254
GP0c	0.445	0.087
NOD	-0.218	0.939
NZO	-0.085	0.853
PWK	0.212	0.811
H37Rv_KO_CtpC	0.874	1.414
H37Rv_KO_CtpD	0.261	0.125
H37Rv_KO_Rv1272	0.901	0.225
H37Rv_KO_SugABC	0.807	0.73
H37Rv_KO_MbtN	-0.936	-0.648
Trans05	0.352	-0.013
macrophage_unactivated	-0.287	0.044
IL1	0.288	0.436
Rapamycin	-0.04	-0.117
Tcell	0.081	0.381
GMCSF	1.117	0.251
IFNab	-0.378	0.193
IFNg	-0.39	0.291
IFNg_GMCSF1	0.83	-0.016
Rv1432_day32	-0.012	0.424
Rv1565c_day32	-0.204	0.033
secA2_input	-0.479	-1.124
delta_Rv3594	0.179	-0.021
delta_Rv3717	0.12	-0.082
delta_Rv3811	0.721	0.062
delta_Rv0954	1.196	0.214
PonA1	0.027	0.772
EccD1_KO	0.158	0.424
EspI_KO	-0.704	0.69
PE35_KO	-0.534	0.111
PPE68_KO	-0.477	0.141
glycerol2	0.925	0.895
lignocerate	1.106	1.022
oleate	0.52	0.499
phosphatidylcholine	1.248	0.868
acetate	-0.07	0.115
glucAc	0.788	0.128
Rv0950ko	-0.73	-0.555
Rv1096ko	-0.501	-0.745
Rv3684ko	-1.055	-0.927
delta_otsA_trehalose	0.151	0.123