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 Rv2797c/-

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

	Rv2918c/glnD	Rv2797c/-
Fe_supp_jason_reseq	-1.279	-0.38
low_pH_jason_reseq	-0.825	-1.114
NO_jason_reseq	0.47	-0.289
B6_jason_reseq	-0.138	-0.538
MHCII_jason_reseq	0.079	0.394
Isoniazid02	-0.087	0.146
Rifampicin4	-0.301	-0.179
Ethambutol3	-0.162	0.315
Meropenem3	0.661	0.0
Vancomycin16	0.05	0.151
Rv2680_day32	-0.459	0.947
H37Rv_KO_MarP	0.449	0.302
hypoxia_3wks	0.159	1.619
hypoxia_6wks	0.464	1.608
glycerol	-0.718	0.439
cholesterol	-0.09	0.163
AJ	0.597	0.565
Bibs02	0.125	0.114
Bibs02c	0.887	0.226
BL6	0.176	0.532
BL6a	0.446	0.475
BXD01	-0.794	0.189
BXD010	-0.286	0.165
BXD011	-0.106	0.112
BXD03	0.44	0.391
BXD04	-0.202	0.941
BXD05	0.891	0.303
BXD06	-0.349	0.467
BXD07	-0.615	0.405
BXD08	-0.86	0.16
BXD09	-0.245	0.366
CAST	1.036	0.601
CCcont	-0.553	-0.077
DS01	0.248	0.667
DS02	0.577	0.545
DS04	-0.294	0.759
DS0c	1.018	0.464
GP01	0.425	0.843
GP02	1.02	0.603
GP0c	-0.04	0.626
NOD	0.374	0.618
NZO	0.692	0.419
PWK	0.791	0.834
H37Rv_KO_CtpC	0.505	0.61
H37Rv_KO_CtpD	0.11	0.242
H37Rv_KO_Rv1272	-1.022	-0.252
H37Rv_KO_SugABC	0.521	0.273
H37Rv_KO_MbtN	0.207	-0.321
Trans05	-0.292	0.299
macrophage_unactivated	-0.413	-0.155
IL1	0.225	0.43
Rapamycin	-0.675	0.187
Tcell	-0.485	0.124
GMCSF	-0.127	-0.222
IFNab	0.0	0.157
IFNg	-0.043	0.259
IFNg_GMCSF1	0.556	0.016
Rv1432_day32	-0.196	-0.19
Rv1565c_day32	-1.392	-0.182
secA2_input	-0.601	0.07
delta_Rv3594	0.076	0.135
delta_Rv3717	0.546	-0.053
delta_Rv3811	0.589	0.061
delta_Rv0954	1.028	0.291
PonA1	0.585	0.756
EccD1_KO	-0.431	0.22
EspI_KO	-1.124	-0.183
PE35_KO	-0.382	-0.239
PPE68_KO	-0.883	-0.518
glycerol2	-0.198	-0.035
lignocerate	-0.217	-0.016
oleate	-0.805	0.179
phosphatidylcholine	-0.661	0.069
acetate	-0.494	-0.598
glucAc	-0.265	-0.585
Rv0950ko	0.289	0.781
Rv1096ko	-0.184	0.576
Rv3684ko	-1.005	0.455
delta_otsA_trehalose	0.177	0.295