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 Rv0863/-

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

	Rv0770/-	Rv0863/-
Fe_supp_jason_reseq	-1.174	-0.044
low_pH_jason_reseq	0.214	0.413
NO_jason_reseq	0.646	-2.014
B6_jason_reseq	-0.255	-0.861
MHCII_jason_reseq	0.065	-1.491
Isoniazid02	0.191	-0.258
Rifampicin4	0.785	0.122
Ethambutol3	0.081	1.414
Meropenem3	2.949	2.609
Vancomycin16	0.719	0.645
Rv2680_day32	-1.435	-0.981
H37Rv_KO_MarP	1.058	0.769
hypoxia_3wks	-0.478	-0.1
hypoxia_6wks	0.038	-1.32
glycerol	-1.11	0.222
cholesterol	0.324	0.062
AJ	0.832	1.63
Bibs02	-0.044	0.237
Bibs02c	0.565	0.547
BL6	1.421	0.499
BL6a	0.115	-0.029
BXD01	1.033	0.799
BXD010	1.251	0.48
BXD011	0.762	0.756
BXD03	1.775	0.807
BXD04	1.598	0.366
BXD05	0.56	0.112
BXD06	1.159	1.194
BXD07	1.339	0.416
BXD08	1.728	0.821
BXD09	0.65	0.136
CAST	0.447	-0.606
CCcont	0.768	0.625
DS01	0.055	-0.37
DS02	1.134	0.469
DS04	-0.614	1.681
DS0c	1.584	0.077
GP01	0.577	-0.288
GP02	-0.664	0.705
GP0c	0.949	0.766
NOD	0.545	-0.295
NZO	-0.538	-0.98
PWK	1.385	0.279
H37Rv_KO_CtpC	1.107	0.765
H37Rv_KO_CtpD	0.496	0.228
H37Rv_KO_Rv1272	0.444	0.697
H37Rv_KO_SugABC	0.111	-1.59
H37Rv_KO_MbtN	0.722	0.537
Trans05	-0.015	-0.272
macrophage_unactivated	0.117	0.221
IL1	0.32	-0.332
Rapamycin	0.712	-0.255
Tcell	1.03	0.143
GMCSF	1.027	0.296
IFNab	1.046	0.463
IFNg	1.438	0.072
IFNg_GMCSF1	0.339	-0.028
Rv1432_day32	0.372	-1.696
Rv1565c_day32	0.46	0.84
secA2_input	1.032	-0.063
delta_Rv3594	0.951	-0.194
delta_Rv3717	0.287	-0.609
delta_Rv3811	0.907	-0.101
delta_Rv0954	-0.603	0.494
PonA1	-0.044	-0.084
EccD1_KO	0.493	0.96
EspI_KO	-0.205	-0.08
PE35_KO	0.834	-0.403
PPE68_KO	0.429	-0.179
glycerol2	0.757	0.0
lignocerate	0.533	-0.377
oleate	1.252	0.505
phosphatidylcholine	0.989	0.574
acetate	0.598	-0.788
glucAc	0.01	-0.583
Rv0950ko	0.103	0.214
Rv1096ko	0.543	0.528
Rv3684ko	0.275	-0.812
delta_otsA_trehalose	-0.485	-0.509