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 Rv3314c/deoA:

update plot	correlation	link to info on gene
Rv2038c/-	(cc=0.4941)	info on Rv2038c/-
Rv2758c/vapB21	(cc=0.4894)	info on Rv2758c/vapB21
Rv0093c/-	(cc=0.4721)	info on Rv0093c/-
Rv1964/yrbE3A	(cc=0.4712)	info on Rv1964/yrbE3A
Rv2871/vapB43	(cc=0.4622)	info on Rv2871/vapB43
Rv2147c/-	(cc=0.4616)	info on Rv2147c/-
Rv1128c/-	(cc=0.4494)	info on Rv1128c/-
Rv3650/PE33	(cc=0.4446)	info on Rv3650/PE33
Rv3036c/TB22.2	(cc=0.4375)	info on Rv3036c/TB22.2
Rv3584/lpqE	(cc=0.4355)	info on Rv3584/lpqE

Correlation of Rv3314c/deoA with Rv2147c/-

Normalized LFCs for Rv3314c/deoA:
(description and provenance of datasets)

	Rv3314c/deoA	Rv2147c/-
Fe_supp_jason_reseq	-0.672	-1.733
low_pH_jason_reseq	0.291	0.345
NO_jason_reseq	-0.753	-0.438
B6_jason_reseq	-1.302	-1.49
MHCII_jason_reseq	-1.01	-0.968
Isoniazid02	-0.217	0.284
Rifampicin4	0.203	0.731
Ethambutol3	-0.198	0.0
Meropenem3	1.96	0.353
Vancomycin16	0.326	-0.785
Rv2680_day32	-0.435	-1.559
H37Rv_KO_MarP	-0.562	-2.052
hypoxia_3wks	-0.542	0.12
hypoxia_6wks	0.061	0.77
glycerol	-0.519	-0.287
cholesterol	-0.398	-0.917
AJ	-0.479	-0.713
Bibs02	-1.229	0.229
Bibs02c	-1.155	-0.867
BL6	0.574	2.015
BL6a	-0.254	0.346
BXD01	0.405	0.441
BXD010	-0.224	0.703
BXD011	-0.284	1.578
BXD03	0.053	-0.45
BXD04	0.308	0.848
BXD05	0.018	0.855
BXD06	0.529	0.916
BXD07	0.018	0.22
BXD08	0.783	0.605
BXD09	-0.038	0.907
CAST	-0.26	-1.625
CCcont	1.179	0.917
DS01	-0.775	-1.495
DS02	-0.214	-1.303
DS04	-0.249	-0.499
DS0c	-0.245	-1.09
GP01	0.453	1.579
GP02	-0.387	0.281
GP0c	0.179	1.526
NOD	-0.778	-1.129
NZO	-0.478	-1.195
PWK	0.026	-0.504
H37Rv_KO_CtpC	1.041	0.892
H37Rv_KO_CtpD	-0.088	1.682
H37Rv_KO_Rv1272	0.841	1.279
H37Rv_KO_SugABC	-0.99	1.939
H37Rv_KO_MbtN	1.025	0.794
Trans05	1.346	1.45
macrophage_unactivated	0.644	0.167
IL1	0.789	1.059
Rapamycin	1.961	0.687
Tcell	0.231	0.42
GMCSF	0.187	0.591
IFNab	0.759	0.275
IFNg	0.831	-0.072
IFNg_GMCSF1	-0.484	0.405
Rv1432_day32	1.103	0.933
Rv1565c_day32	0.859	0.818
secA2_input	-0.866	0.255
delta_Rv3594	0.0	1.767
delta_Rv3717	0.191	1.939
delta_Rv3811	-0.378	0.996
delta_Rv0954	-0.262	-0.021
PonA1	-0.122	-1.117
EccD1_KO	0.086	0.71
EspI_KO	-0.819	-0.588
PE35_KO	-0.656	-0.42
PPE68_KO	-0.72	0.298
glycerol2	0.038	2.091
lignocerate	0.558	2.954
oleate	-1.289	0.123
phosphatidylcholine	0.181	2.342
acetate	0.0	2.733
glucAc	0.302	2.576
Rv0950ko	-0.95	-1.646
Rv1096ko	-0.087	-0.241
Rv3684ko	-0.386	-0.174
delta_otsA_trehalose	0.168	0.079