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 Rv0771/-:

update plot	correlation	link to info on gene
Rv0306/-	(cc=0.5274)	info on Rv0306/-
Rv3032/-	(cc=0.5215)	info on Rv3032/-
Rv1208/gpgS	(cc=0.5165)	info on Rv1208/gpgS
Rv2424c/-	(cc=0.4995)	info on Rv2424c/-
Rv0084/hycD	(cc=0.4796)	info on Rv0084/hycD
Rv2306B/-	(cc=0.4762)	info on Rv2306B/-
Rv2980/-	(cc=0.4756)	info on Rv2980/-
Rv3055/-	(cc=0.4717)	info on Rv3055/-
Rv1153c/omt	(cc=0.4498)	info on Rv1153c/omt
Rv3548c/-	(cc=0.4462)	info on Rv3548c/-

Correlation of Rv0771/- with Rv1208/gpgS

Normalized LFCs for Rv0771/-:
(description and provenance of datasets)

	Rv0771/-	Rv1208/gpgS
Fe_supp_jason_reseq	0.077	0.0
low_pH_jason_reseq	0.266	0.0
NO_jason_reseq	-0.517	0.0
B6_jason_reseq	0.257	0.0
MHCII_jason_reseq	0.977	0.0
Isoniazid02	0.259	0.0
Rifampicin4	0.046	0.0
Ethambutol3	-0.562	0.0
Meropenem3	-0.242	0.0
Vancomycin16	1.398	0.0
Rv2680_day32	-0.281	0.0
H37Rv_KO_MarP	0.436	0.0
hypoxia_3wks	0.275	0.0
hypoxia_6wks	0.47	0.0
glycerol	-1.498	0.0
cholesterol	-1.152	0.0
AJ	0.746	0.0
Bibs02	0.634	0.0
Bibs02c	-0.456	0.0
BL6	1.053	0.0
BL6a	-0.105	0.0
BXD01	0.581	0.0
BXD010	0.338	0.0
BXD011	0.284	0.0
BXD03	-0.239	0.0
BXD04	0.714	0.0
BXD05	0.142	0.0
BXD06	0.192	0.0
BXD07	0.428	0.0
BXD08	0.775	0.0
BXD09	0.116	0.0
CAST	-0.43	0.0
CCcont	0.616	0.149
DS01	-0.347	0.0
DS02	-0.769	0.0
DS04	0.221	0.0
DS0c	0.074	0.0
GP01	0.178	0.0
GP02	-0.948	0.0
GP0c	-0.284	0.0
NOD	0.076	0.0
NZO	0.539	0.0
PWK	0.854	0.0
H37Rv_KO_CtpC	-0.115	0.0
H37Rv_KO_CtpD	-1.731	0.0
H37Rv_KO_Rv1272	0.012	0.0
H37Rv_KO_SugABC	0.05	0.0
H37Rv_KO_MbtN	-1.027	0.0
Trans05	0.149	0.0
macrophage_unactivated	-0.129	0.0
IL1	-0.851	0.0
Rapamycin	0.353	0.0
Tcell	-0.935	0.0
GMCSF	0.106	0.0
IFNab	-0.218	0.0
IFNg	-0.834	0.0
IFNg_GMCSF1	-0.031	0.0
Rv1432_day32	-0.083	0.0
Rv1565c_day32	0.523	0.0
secA2_input	0.0	-1.234
delta_Rv3594	0.991	0.0
delta_Rv3717	-0.17	0.0
delta_Rv3811	-0.272	0.0
delta_Rv0954	-0.509	0.178
PonA1	0.0	0.0
EccD1_KO	1.345	0.454
EspI_KO	2.227	1.383
PE35_KO	1.878	2.234
PPE68_KO	2.665	2.451
glycerol2	0.814	0.0
lignocerate	0.816	0.0
oleate	0.713	0.0
phosphatidylcholine	1.035	0.0
acetate	0.776	0.0
glucAc	0.539	0.272
Rv0950ko	-0.106	0.416
Rv1096ko	1.381	0.416
Rv3684ko	0.056	1.241
delta_otsA_trehalose	0.687	0.133