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 Rv2424c/-

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

	Rv0771/-	Rv2424c/-
Fe_supp_jason_reseq	0.077	-0.701
low_pH_jason_reseq	0.266	-1.082
NO_jason_reseq	-0.517	0.349
B6_jason_reseq	0.257	0.996
MHCII_jason_reseq	0.977	-0.668
Isoniazid02	0.259	-0.18
Rifampicin4	0.046	0.875
Ethambutol3	-0.562	0.573
Meropenem3	-0.242	0.659
Vancomycin16	1.398	0.645
Rv2680_day32	-0.281	0.043
H37Rv_KO_MarP	0.436	0.676
hypoxia_3wks	0.275	-0.167
hypoxia_6wks	0.47	0.121
glycerol	-1.498	-1.287
cholesterol	-1.152	-0.457
AJ	0.746	0.913
Bibs02	0.634	-0.148
Bibs02c	-0.456	0.196
BL6	1.053	0.455
BL6a	-0.105	-0.29
BXD01	0.581	-0.276
BXD010	0.338	-0.559
BXD011	0.284	-0.513
BXD03	-0.239	-0.213
BXD04	0.714	0.063
BXD05	0.142	-0.628
BXD06	0.192	-0.469
BXD07	0.428	-0.288
BXD08	0.775	-0.209
BXD09	0.116	-0.242
CAST	-0.43	0.295
CCcont	0.616	-1.203
DS01	-0.347	0.33
DS02	-0.769	0.775
DS04	0.221	0.864
DS0c	0.074	0.412
GP01	0.178	0.121
GP02	-0.948	0.333
GP0c	-0.284	0.623
NOD	0.076	0.413
NZO	0.539	0.909
PWK	0.854	0.645
H37Rv_KO_CtpC	-0.115	-0.184
H37Rv_KO_CtpD	-1.731	-0.777
H37Rv_KO_Rv1272	0.012	-0.222
H37Rv_KO_SugABC	0.05	-0.344
H37Rv_KO_MbtN	-1.027	-1.569
Trans05	0.149	1.084
macrophage_unactivated	-0.129	-0.407
IL1	-0.851	-1.1
Rapamycin	0.353	-0.93
Tcell	-0.935	-0.479
GMCSF	0.106	0.098
IFNab	-0.218	-0.937
IFNg	-0.834	-0.69
IFNg_GMCSF1	-0.031	0.148
Rv1432_day32	-0.083	-0.03
Rv1565c_day32	0.523	0.215
secA2_input	0.0	0.941
delta_Rv3594	0.991	-0.72
delta_Rv3717	-0.17	-0.865
delta_Rv3811	-0.272	-0.769
delta_Rv0954	-0.509	-1.039
PonA1	0.0	-0.256
EccD1_KO	1.345	2.559
EspI_KO	2.227	1.657
PE35_KO	1.878	1.173
PPE68_KO	2.665	1.654
glycerol2	0.814	0.184
lignocerate	0.816	0.183
oleate	0.713	0.604
phosphatidylcholine	1.035	0.794
acetate	0.776	0.357
glucAc	0.539	-0.149
Rv0950ko	-0.106	-0.069
Rv1096ko	1.381	-0.187
Rv3684ko	0.056	-0.334
delta_otsA_trehalose	0.687	-0.098