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 Rv2425c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2544/lppB	(cc=0.5257)	info on Rv2544/lppB
Rv1471/trxB1	(cc=0.519)	info on Rv1471/trxB1
Rv3142c/-	(cc=0.5054)	info on Rv3142c/-
Rv1526c/-	(cc=0.505)	info on Rv1526c/-
Rv0834c/PE_PGRS14	(cc=0.4995)	info on Rv0834c/PE_PGRS14
Rv3335c/-	(cc=0.4919)	info on Rv3335c/-
Rv1141c/echA11	(cc=0.488)	info on Rv1141c/echA11
Rv2253/-	(cc=0.4803)	info on Rv2253/-
Rv1961/-	(cc=0.4769)	info on Rv1961/-
Rv2689c/-	(cc=0.4754)	info on Rv2689c/-

Correlation of Rv2425c/- with Rv2544/lppB

Normalized LFCs for Rv2425c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2425c/-	Rv2544/lppB
Fe_supp_jason_reseq	-1.459	1.127
low_pH_jason_reseq	-1.082	-1.017
NO_jason_reseq	0.635	0.173
B6_jason_reseq	-1.089	0.024
MHCII_jason_reseq	-1.055	-1.788
Isoniazid02	-0.627	0.0
Rifampicin4	-0.393	-0.883
Ethambutol3	-0.254	-0.353
Meropenem3	-0.195	-0.391
Vancomycin16	0.064	0.799
Rv2680_day32	-0.812	0.305
H37Rv_KO_MarP	0.244	-0.246
hypoxia_3wks	-0.327	-0.813
hypoxia_6wks	-0.148	-0.115
glycerol	0.399	0.06
cholesterol	0.233	-0.184
AJ	0.955	-0.071
Bibs02	0.649	0.437
Bibs02c	0.235	1.105
BL6	1.008	1.373
BL6a	0.501	1.738
BXD01	0.323	1.583
BXD010	0.605	1.615
BXD011	0.371	1.618
BXD03	-0.009	1.844
BXD04	-0.104	1.957
BXD05	0.21	1.846
BXD06	0.201	1.135
BXD07	0.729	1.284
BXD08	0.009	1.041
BXD09	0.076	1.435
CAST	0.594	-0.908
CCcont	0.341	1.744
DS01	-0.296	0.137
DS02	-0.463	-0.276
DS04	0.173	0.554
DS0c	-0.671	-0.275
GP01	0.149	-0.745
GP02	-0.33	-0.444
GP0c	0.474	-0.83
NOD	-0.189	-0.361
NZO	0.465	-0.253
PWK	0.756	1.172
H37Rv_KO_CtpC	1.982	2.292
H37Rv_KO_CtpD	0.997	1.467
H37Rv_KO_Rv1272	0.364	1.852
H37Rv_KO_SugABC	0.374	1.493
H37Rv_KO_MbtN	1.325	2.949
Trans05	0.99	1.969
macrophage_unactivated	-0.464	0.249
IL1	-0.344	0.178
Rapamycin	-0.175	0.061
Tcell	-0.137	0.56
GMCSF	0.09	0.309
IFNab	-0.683	0.296
IFNg	-0.874	0.828
IFNg_GMCSF1	-0.11	1.901
Rv1432_day32	0.227	0.035
Rv1565c_day32	-0.058	1.311
secA2_input	0.357	-0.606
delta_Rv3594	0.474	1.201
delta_Rv3717	0.659	0.055
delta_Rv3811	0.202	0.86
delta_Rv0954	0.401	0.727
PonA1	0.671	0.075
EccD1_KO	0.806	0.059
EspI_KO	0.724	0.485
PE35_KO	0.846	0.855
PPE68_KO	0.298	0.841
glycerol2	0.471	2.159
lignocerate	1.148	2.678
oleate	-0.187	-1.239
phosphatidylcholine	1.036	2.189
acetate	1.325	2.909
glucAc	0.61	2.554
Rv0950ko	0.268	0.121
Rv1096ko	-0.157	-0.712
Rv3684ko	0.033	-0.517
delta_otsA_trehalose	-0.544	-0.318