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 Rv1567c/-

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

	Rv2918c/glnD	Rv1567c/-
Fe_supp_jason_reseq	-1.279	0.767
low_pH_jason_reseq	-0.825	-0.627
NO_jason_reseq	0.47	0.57
B6_jason_reseq	-0.138	1.235
MHCII_jason_reseq	0.079	1.475
Isoniazid02	-0.087	0.17
Rifampicin4	-0.301	0.008
Ethambutol3	-0.162	0.027
Meropenem3	0.661	-0.162
Vancomycin16	0.05	-1.098
Rv2680_day32	-0.459	0.08
H37Rv_KO_MarP	0.449	-1.002
hypoxia_3wks	0.159	0.0
hypoxia_6wks	0.464	0.516
glycerol	-0.718	-0.922
cholesterol	-0.09	0.833
AJ	0.597	0.397
Bibs02	0.125	1.429
Bibs02c	0.887	1.132
BL6	0.176	0.8
BL6a	0.446	1.179
BXD01	-0.794	0.751
BXD010	-0.286	0.698
BXD011	-0.106	0.41
BXD03	0.44	0.526
BXD04	-0.202	0.66
BXD05	0.891	1.028
BXD06	-0.349	0.772
BXD07	-0.615	0.823
BXD08	-0.86	0.557
BXD09	-0.245	0.901
CAST	1.036	0.484
CCcont	-0.553	0.438
DS01	0.248	0.932
DS02	0.577	0.993
DS04	-0.294	0.004
DS0c	1.018	0.919
GP01	0.425	0.938
GP02	1.02	1.096
GP0c	-0.04	0.623
NOD	0.374	1.23
NZO	0.692	0.184
PWK	0.791	0.698
H37Rv_KO_CtpC	0.505	0.358
H37Rv_KO_CtpD	0.11	1.02
H37Rv_KO_Rv1272	-1.022	0.468
H37Rv_KO_SugABC	0.521	0.84
H37Rv_KO_MbtN	0.207	0.264
Trans05	-0.292	0.562
macrophage_unactivated	-0.413	0.395
IL1	0.225	-0.199
Rapamycin	-0.675	-0.123
Tcell	-0.485	-0.248
GMCSF	-0.127	-0.338
IFNab	0.0	0.354
IFNg	-0.043	0.091
IFNg_GMCSF1	0.556	0.955
Rv1432_day32	-0.196	-0.413
Rv1565c_day32	-1.392	0.531
secA2_input	-0.601	-0.661
delta_Rv3594	0.076	0.439
delta_Rv3717	0.546	0.857
delta_Rv3811	0.589	0.225
delta_Rv0954	1.028	1.813
PonA1	0.585	0.395
EccD1_KO	-0.431	-0.559
EspI_KO	-1.124	-0.987
PE35_KO	-0.382	-0.263
PPE68_KO	-0.883	-0.717
glycerol2	-0.198	-0.09
lignocerate	-0.217	0.356
oleate	-0.805	-0.679
phosphatidylcholine	-0.661	-0.211
acetate	-0.494	-0.121
glucAc	-0.265	-0.334
Rv0950ko	0.289	0.528
Rv1096ko	-0.184	-0.477
Rv3684ko	-1.005	0.075
delta_otsA_trehalose	0.177	-0.301