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 Rv0770/-:

update plot	correlation	link to info on gene
Rv0973c/accA2	(cc=0.464)	info on Rv0973c/accA2
Rv0863/-	(cc=0.4065)	info on Rv0863/-
Rv1076/lipU	(cc=0.4025)	info on Rv1076/lipU
Rv3713/cobQ2	(cc=0.3989)	info on Rv3713/cobQ2
Rv3016/lpqA	(cc=0.3952)	info on Rv3016/lpqA
Rv3692/moxR2	(cc=0.3938)	info on Rv3692/moxR2
Rv1216c/-	(cc=0.3937)	info on Rv1216c/-
Rv3314c/deoA	(cc=0.3883)	info on Rv3314c/deoA
Rv0188/-	(cc=0.3728)	info on Rv0188/-
Rv3796/-	(cc=0.3704)	info on Rv3796/-

Correlation of Rv0770/- with Rv3692/moxR2

Normalized LFCs for Rv0770/-:
(description and provenance of datasets)

	Rv0770/-	Rv3692/moxR2
Fe_supp_jason_reseq	-1.174	-1.23
low_pH_jason_reseq	0.214	-0.495
NO_jason_reseq	0.646	-0.286
B6_jason_reseq	-0.255	-1.231
MHCII_jason_reseq	0.065	-2.021
Isoniazid02	0.191	-0.719
Rifampicin4	0.785	-0.149
Ethambutol3	0.081	0.604
Meropenem3	2.949	0.684
Vancomycin16	0.719	0.072
Rv2680_day32	-1.435	-1.073
H37Rv_KO_MarP	1.058	-1.228
hypoxia_3wks	-0.478	0.782
hypoxia_6wks	0.038	0.77
glycerol	-1.11	-0.436
cholesterol	0.324	-0.363
AJ	0.832	0.698
Bibs02	-0.044	-0.592
Bibs02c	0.565	0.196
BL6	1.421	0.309
BL6a	0.115	0.4
BXD01	1.033	0.432
BXD010	1.251	0.662
BXD011	0.762	0.018
BXD03	1.775	0.019
BXD04	1.598	0.64
BXD05	0.56	0.762
BXD06	1.159	0.107
BXD07	1.339	1.032
BXD08	1.728	0.857
BXD09	0.65	0.251
CAST	0.447	0.032
CCcont	0.768	1.392
DS01	0.055	-0.067
DS02	1.134	-0.663
DS04	-0.614	-1.727
DS0c	1.584	0.806
GP01	0.577	0.244
GP02	-0.664	-0.224
GP0c	0.949	0.248
NOD	0.545	0.53
NZO	-0.538	1.13
PWK	1.385	0.729
H37Rv_KO_CtpC	1.107	-0.118
H37Rv_KO_CtpD	0.496	-0.768
H37Rv_KO_Rv1272	0.444	-0.329
H37Rv_KO_SugABC	0.111	-0.984
H37Rv_KO_MbtN	0.722	1.124
Trans05	-0.015	-0.056
macrophage_unactivated	0.117	-0.17
IL1	0.32	-0.828
Rapamycin	0.712	-0.341
Tcell	1.03	0.495
GMCSF	1.027	-0.143
IFNab	1.046	0.568
IFNg	1.438	0.208
IFNg_GMCSF1	0.339	1.241
Rv1432_day32	0.372	1.008
Rv1565c_day32	0.46	-0.464
secA2_input	1.032	0.856
delta_Rv3594	0.951	0.252
delta_Rv3717	0.287	0.994
delta_Rv3811	0.907	0.561
delta_Rv0954	-0.603	0.102
PonA1	-0.044	-0.485
EccD1_KO	0.493	-1.184
EspI_KO	-0.205	-1.138
PE35_KO	0.834	-0.796
PPE68_KO	0.429	-1.11
glycerol2	0.757	0.247
lignocerate	0.533	-0.559
oleate	1.252	0.71
phosphatidylcholine	0.989	-0.679
acetate	0.598	-0.406
glucAc	0.01	-0.614
Rv0950ko	0.103	0.19
Rv1096ko	0.543	1.037
Rv3684ko	0.275	2.207
delta_otsA_trehalose	-0.485	-2.077