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 Rv2468c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2625c/-	(cc=0.4699)	info on Rv2625c/-
Rv3446c/-	(cc=0.4683)	info on Rv3446c/-
Rv0379/secE2	(cc=0.4665)	info on Rv0379/secE2
Rv2859c/-	(cc=0.441)	info on Rv2859c/-
Rv1974/-	(cc=0.435)	info on Rv1974/-
Rv3354/-	(cc=0.4312)	info on Rv3354/-
Rv2031c/hspX	(cc=0.4308)	info on Rv2031c/hspX
Rv2426c/-	(cc=0.4241)	info on Rv2426c/-
Rv1941/-	(cc=0.419)	info on Rv1941/-
Rv3167c/-	(cc=0.4168)	info on Rv3167c/-

Correlation of Rv2468c/- with Rv2625c/-

Normalized LFCs for Rv2468c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2468c/-	Rv2625c/-
Fe_supp_jason_reseq	-0.725	-0.996
low_pH_jason_reseq	1.447	-0.502
NO_jason_reseq	-0.102	-0.373
B6_jason_reseq	-0.049	1.067
MHCII_jason_reseq	-0.277	0.747
Isoniazid02	-0.362	0.278
Rifampicin4	0.0	0.165
Ethambutol3	-0.091	-0.202
Meropenem3	1.751	1.966
Vancomycin16	0.265	0.395
Rv2680_day32	0.112	0.49
H37Rv_KO_MarP	0.097	-0.143
hypoxia_3wks	-0.949	0.056
hypoxia_6wks	-1.748	-0.441
glycerol	-0.018	-0.424
cholesterol	-0.44	-0.105
AJ	-1.168	-0.151
Bibs02	0.619	-0.69
Bibs02c	0.095	0.026
BL6	0.005	-0.428
BL6a	-0.204	-0.09
BXD01	-0.403	-0.335
BXD010	0.089	-1.187
BXD011	-0.76	-0.931
BXD03	-1.345	-0.707
BXD04	-1.741	-0.857
BXD05	-1.171	-0.241
BXD06	-1.27	-0.591
BXD07	-0.202	-0.6
BXD08	-0.886	-0.551
BXD09	-0.569	-0.48
CAST	-0.215	-0.073
CCcont	-0.983	-0.591
DS01	-1.016	0.103
DS02	-0.788	-0.44
DS04	0.284	-0.483
DS0c	-2.547	0.611
GP01	-0.24	-0.025
GP02	0.546	-0.368
GP0c	0.274	-1.287
NOD	-1.341	-0.524
NZO	-0.442	0.038
PWK	0.693	0.29
H37Rv_KO_CtpC	-1.096	-1.229
H37Rv_KO_CtpD	-0.885	-1.174
H37Rv_KO_Rv1272	-0.185	-1.443
H37Rv_KO_SugABC	-1.444	-1.392
H37Rv_KO_MbtN	-1.339	0.43
Trans05	-0.809	-0.89
macrophage_unactivated	0.565	-0.581
IL1	-0.308	-0.629
Rapamycin	-0.957	-0.97
Tcell	-0.482	-1.235
GMCSF	-0.993	-0.713
IFNab	-1.058	-1.445
IFNg	-0.454	-1.056
IFNg_GMCSF1	-0.679	-1.782
Rv1432_day32	0.411	0.763
Rv1565c_day32	-0.783	-0.041
secA2_input	-0.681	-1.271
delta_Rv3594	-0.61	1.208
delta_Rv3717	0.761	0.375
delta_Rv3811	-0.158	0.33
delta_Rv0954	0.487	0.593
PonA1	0.242	1.526
EccD1_KO	0.421	1.108
EspI_KO	0.836	0.0
PE35_KO	-0.149	0.353
PPE68_KO	-0.477	0.534
glycerol2	-1.142	0.261
lignocerate	0.055	0.357
oleate	-0.841	-0.026
phosphatidylcholine	0.123	0.216
acetate	0.843	1.393
glucAc	0.796	0.377
Rv0950ko	0.953	1.315
Rv1096ko	0.501	2.12
Rv3684ko	1.788	1.945
delta_otsA_trehalose	-0.836	-0.18