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 Rv2918c/glnD:

update plot	correlation	link to info on gene
Rv0731c/-	(cc=0.4799)	info on Rv0731c/-
Rv3787c/-	(cc=0.4611)	info on Rv3787c/-
Rv2649/-	(cc=0.4398)	info on Rv2649/-
Rv0796/-	(cc=0.4343)	info on Rv0796/-
Rv1567c/-	(cc=0.4315)	info on Rv1567c/-
Rv3836/-	(cc=0.4206)	info on Rv3836/-
Rv2797c/-	(cc=0.4163)	info on Rv2797c/-
Rv0671/lpqP	(cc=0.4161)	info on Rv0671/lpqP
Rv3187/-	(cc=0.4142)	info on Rv3187/-
Rv2479c/-	(cc=0.4049)	info on Rv2479c/-

Correlation of Rv2918c/glnD with Rv3836/-

Normalized LFCs for Rv2918c/glnD:
(description and provenance of datasets)

	Rv2918c/glnD	Rv3836/-
Fe_supp_jason_reseq	-1.279	-1.32
low_pH_jason_reseq	-0.825	-0.793
NO_jason_reseq	0.47	0.685
B6_jason_reseq	-0.138	-0.122
MHCII_jason_reseq	0.079	-0.063
Isoniazid02	-0.087	0.287
Rifampicin4	-0.301	0.122
Ethambutol3	-0.162	0.295
Meropenem3	0.661	0.401
Vancomycin16	0.05	0.175
Rv2680_day32	-0.459	-0.335
H37Rv_KO_MarP	0.449	1.054
hypoxia_3wks	0.159	0.279
hypoxia_6wks	0.464	-0.612
glycerol	-0.718	-0.026
cholesterol	-0.09	0.115
AJ	0.597	0.116
Bibs02	0.125	0.844
Bibs02c	0.887	0.276
BL6	0.176	0.273
BL6a	0.446	0.522
BXD01	-0.794	0.437
BXD010	-0.286	0.161
BXD011	-0.106	0.427
BXD03	0.44	0.49
BXD04	-0.202	-0.195
BXD05	0.891	0.772
BXD06	-0.349	0.69
BXD07	-0.615	-0.072
BXD08	-0.86	0.337
BXD09	-0.245	0.398
CAST	1.036	0.584
CCcont	-0.553	0.689
DS01	0.248	-0.062
DS02	0.577	0.041
DS04	-0.294	-0.923
DS0c	1.018	-0.544
GP01	0.425	-0.085
GP02	1.02	1.926
GP0c	-0.04	0.746
NOD	0.374	-0.163
NZO	0.692	1.458
PWK	0.791	0.202
H37Rv_KO_CtpC	0.505	0.46
H37Rv_KO_CtpD	0.11	0.048
H37Rv_KO_Rv1272	-1.022	0.561
H37Rv_KO_SugABC	0.521	1.408
H37Rv_KO_MbtN	0.207	0.088
Trans05	-0.292	-0.416
macrophage_unactivated	-0.413	0.0
IL1	0.225	0.973
Rapamycin	-0.675	0.258
Tcell	-0.485	0.199
GMCSF	-0.127	0.393
IFNab	0.0	-0.45
IFNg	-0.043	-0.468
IFNg_GMCSF1	0.556	-0.305
Rv1432_day32	-0.196	0.078
Rv1565c_day32	-1.392	-2.889
secA2_input	-0.601	0.723
delta_Rv3594	0.076	-0.531
delta_Rv3717	0.546	0.167
delta_Rv3811	0.589	0.238
delta_Rv0954	1.028	0.0
PonA1	0.585	0.422
EccD1_KO	-0.431	-1.273
EspI_KO	-1.124	-0.964
PE35_KO	-0.382	-0.662
PPE68_KO	-0.883	-0.889
glycerol2	-0.198	1.037
lignocerate	-0.217	0.975
oleate	-0.805	0.683
phosphatidylcholine	-0.661	0.675
acetate	-0.494	0.366
glucAc	-0.265	0.118
Rv0950ko	0.289	-0.555
Rv1096ko	-0.184	-0.579
Rv3684ko	-1.005	-1.503
delta_otsA_trehalose	0.177	-0.871