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 Rv1593c/-:

update plot	correlation	link to info on gene
Rv3421c/-	(cc=0.6084)	info on Rv3421c/-
Rv3419c/gcp	(cc=0.5944)	info on Rv3419c/gcp
Rv1239c/corA	(cc=0.5772)	info on Rv1239c/corA
Rv1100/-	(cc=0.5452)	info on Rv1100/-
Rv3429/PPE59	(cc=0.5437)	info on Rv3429/PPE59
Rv0047c/-	(cc=0.5341)	info on Rv0047c/-
Rv0823c/-	(cc=0.534)	info on Rv0823c/-
Rv0114/gmhB	(cc=0.5324)	info on Rv0114/gmhB
Rv3567c/hsaB	(cc=0.5162)	info on Rv3567c/hsaB
Rv2427c/proA	(cc=0.5155)	info on Rv2427c/proA

Correlation of Rv1593c/- with Rv3421c/-

Normalized LFCs for Rv1593c/-:
(description and provenance of datasets)

	Rv1593c/-	Rv3421c/-
Fe_supp_jason_reseq	0.043	-1.268
low_pH_jason_reseq	0.557	0.157
NO_jason_reseq	0.617	2.221
B6_jason_reseq	0.295	0.53
MHCII_jason_reseq	-0.537	-2.712
Isoniazid02	0.0	-0.201
Rifampicin4	0.831	2.134
Ethambutol3	1.021	1.135
Meropenem3	1.105	0.648
Vancomycin16	0.337	0.923
Rv2680_day32	-1.759	0.05
H37Rv_KO_MarP	0.69	1.008
hypoxia_3wks	-1.192	-1.224
hypoxia_6wks	-0.679	-0.411
glycerol	-1.172	1.279
cholesterol	-1.525	-0.89
AJ	-0.568	0.698
Bibs02	-1.004	0.103
Bibs02c	-1.316	-0.258
BL6	1.101	1.757
BL6a	0.436	1.492
BXD01	0.931	2.681
BXD010	1.191	2.829
BXD011	2.726	2.128
BXD03	0.917	1.94
BXD04	1.905	3.241
BXD05	1.211	2.264
BXD06	1.143	2.67
BXD07	1.219	2.084
BXD08	1.04	1.965
BXD09	0.863	1.816
CAST	1.391	1.86
CCcont	0.486	2.288
DS01	-0.775	-0.802
DS02	0.479	-0.922
DS04	0.656	0.11
DS0c	0.152	-0.737
GP01	0.496	-0.607
GP02	-0.383	-0.353
GP0c	0.379	-0.077
NOD	-0.213	1.422
NZO	0.497	0.22
PWK	1.175	2.568
H37Rv_KO_CtpC	0.155	-0.096
H37Rv_KO_CtpD	1.596	1.298
H37Rv_KO_Rv1272	-0.394	0.542
H37Rv_KO_SugABC	0.817	2.209
H37Rv_KO_MbtN	-0.855	0.963
Trans05	0.451	0.827
macrophage_unactivated	-1.139	-1.146
IL1	-0.392	-1.391
Rapamycin	-0.187	-1.114
Tcell	0.433	0.0
GMCSF	-0.124	-0.108
IFNab	-1.116	1.255
IFNg	0.139	-2.079
IFNg_GMCSF1	-0.063	-1.141
Rv1432_day32	-0.669	-0.804
Rv1565c_day32	-2.267	-0.842
secA2_input	-0.808	-0.424
delta_Rv3594	0.266	-2.492
delta_Rv3717	0.03	-0.142
delta_Rv3811	-0.898	-1.09
delta_Rv0954	0.463	-1.093
PonA1	0.214	-0.56
EccD1_KO	-0.497	-0.372
EspI_KO	-0.545	-0.322
PE35_KO	-0.327	0.23
PPE68_KO	-0.154	-0.857
glycerol2	-0.598	-0.115
lignocerate	0.477	0.838
oleate	-0.658	-0.373
phosphatidylcholine	0.43	0.496
acetate	0.547	2.545
glucAc	0.37	1.892
Rv0950ko	1.052	1.462
Rv1096ko	0.82	0.109
Rv3684ko	0.891	1.916
delta_otsA_trehalose	0.081	-0.477