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 Rv3337/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0077c/-	(cc=0.493)	info on Rv0077c/-
Rv0033/acpA	(cc=0.4666)	info on Rv0033/acpA
Rv0372c/-	(cc=0.4476)	info on Rv0372c/-
Rv0268c/-	(cc=0.4347)	info on Rv0268c/-
Rv0592/mce2D	(cc=0.4338)	info on Rv0592/mce2D
Rv0231/fadE4	(cc=0.4321)	info on Rv0231/fadE4
Rv2797c/-	(cc=0.4154)	info on Rv2797c/-
Rv2211c/gcvT	(cc=0.3892)	info on Rv2211c/gcvT
Rv0566c/-	(cc=0.3866)	info on Rv0566c/-
Rv1748/-	(cc=0.3792)	info on Rv1748/-

Correlation of Rv3337/- with Rv0077c/-

Normalized LFCs for Rv3337/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3337/-	Rv0077c/-
Fe_supp_jason_reseq	0.166	-0.221
low_pH_jason_reseq	-1.243	-0.381
NO_jason_reseq	-1.003	0.029
B6_jason_reseq	-0.03	0.538
MHCII_jason_reseq	0.119	0.238
Isoniazid02	-0.423	0.444
Rifampicin4	-1.124	0.165
Ethambutol3	-0.421	0.555
Meropenem3	0.299	0.528
Vancomycin16	-0.801	0.239
Rv2680_day32	-1.617	-1.331
H37Rv_KO_MarP	0.26	0.349
hypoxia_3wks	0.694	0.546
hypoxia_6wks	0.409	0.37
glycerol	-0.496	0.098
cholesterol	-0.61	-0.208
AJ	0.61	0.555
Bibs02	0.709	1.245
Bibs02c	-0.799	-0.045
BL6	1.042	-0.449
BL6a	-0.222	0.274
BXD01	0.61	-0.404
BXD010	0.006	0.349
BXD011	-0.347	0.035
BXD03	1.18	0.338
BXD04	0.433	0.068
BXD05	-0.168	0.639
BXD06	0.271	0.225
BXD07	-0.107	0.315
BXD08	0.916	-0.058
BXD09	-0.069	0.805
CAST	0.2	0.375
CCcont	0.078	-0.551
DS01	-0.063	0.681
DS02	-0.323	0.148
DS04	0.731	0.804
DS0c	0.449	0.03
GP01	0.489	1.734
GP02	-0.946	0.194
GP0c	-1.028	0.235
NOD	0.094	-0.216
NZO	0.124	0.373
PWK	0.142	0.26
H37Rv_KO_CtpC	-0.366	-1.045
H37Rv_KO_CtpD	-1.138	-0.704
H37Rv_KO_Rv1272	-0.327	-0.411
H37Rv_KO_SugABC	-0.579	-0.952
H37Rv_KO_MbtN	-0.693	-0.973
Trans05	-0.659	-0.057
macrophage_unactivated	0.316	-0.12
IL1	0.131	0.303
Rapamycin	-0.307	0.046
Tcell	-0.508	0.049
GMCSF	0.153	0.573
IFNab	-0.278	0.308
IFNg	-0.099	0.596
IFNg_GMCSF1	0.336	0.0
Rv1432_day32	-0.338	-0.478
Rv1565c_day32	0.174	-0.066
secA2_input	0.183	1.403
delta_Rv3594	-0.259	-1.007
delta_Rv3717	-1.038	-0.868
delta_Rv3811	-0.373	-1.152
delta_Rv0954	-0.012	0.523
PonA1	0.128	0.347
EccD1_KO	-0.316	0.059
EspI_KO	-0.878	-0.813
PE35_KO	-0.846	-0.426
PPE68_KO	-1.609	-0.499
glycerol2	-0.055	-0.289
lignocerate	-0.345	-0.399
oleate	0.525	-0.425
phosphatidylcholine	-0.252	-0.459
acetate	-0.933	-0.195
glucAc	-1.237	-0.777
Rv0950ko	-0.118	0.633
Rv1096ko	0.621	1.327
Rv3684ko	0.364	1.225
delta_otsA_trehalose	0.157	1.344