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 Rv2360c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3136A/-	(cc=0.4792)	info on Rv3136A/-
Rv3230c/-	(cc=0.4568)	info on Rv3230c/-
Rv0757/phoP	(cc=0.4355)	info on Rv0757/phoP
Rv1168c/PPE17	(cc=0.4321)	info on Rv1168c/PPE17
Rv1319c/-	(cc=0.4257)	info on Rv1319c/-
Rv2081c/-	(cc=0.4199)	info on Rv2081c/-
Rv0962c/lprP	(cc=0.4166)	info on Rv0962c/lprP
Rv1321/-	(cc=0.4072)	info on Rv1321/-
Rv0758/phoR	(cc=0.4025)	info on Rv0758/phoR
Rv1989c/-	(cc=0.4025)	info on Rv1989c/-

Correlation of Rv2360c/- with Rv3136A/-

Normalized LFCs for Rv2360c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2360c/-	Rv3136A/-
Fe_supp_jason_reseq	0.167	1.127
low_pH_jason_reseq	1.777	-0.478
NO_jason_reseq	-0.704	0.179
B6_jason_reseq	1.686	0.81
MHCII_jason_reseq	0.171	0.619
Isoniazid02	1.302	2.03
Rifampicin4	-0.087	0.0
Ethambutol3	0.945	2.81
Meropenem3	0.331	2.511
Vancomycin16	-0.191	-0.692
Rv2680_day32	-0.214	0.279
H37Rv_KO_MarP	0.202	1.388
hypoxia_3wks	0.347	0.231
hypoxia_6wks	0.637	-0.898
glycerol	-2.345	-2.093
cholesterol	-1.121	-1.879
AJ	-0.424	-1.138
Bibs02	-2.105	-0.8
Bibs02c	-2.216	-0.72
BL6	-0.385	-1.346
BL6a	-0.544	-1.179
BXD01	-0.004	-1.104
BXD010	-0.69	-1.484
BXD011	0.079	-1.203
BXD03	-0.434	-1.241
BXD04	0.239	-0.514
BXD05	0.043	-1.319
BXD06	-0.477	-1.018
BXD07	-0.14	-1.37
BXD08	-0.12	-1.227
BXD09	-0.103	-1.377
CAST	-0.113	-0.45
CCcont	-0.757	-1.683
DS01	-1.114	-1.489
DS02	-0.898	-0.975
DS04	-0.746	-0.696
DS0c	-0.775	-1.326
GP01	-0.576	-0.861
GP02	1.588	0.397
GP0c	-0.39	-2.4
NOD	0.789	-0.07
NZO	-1.477	-0.548
PWK	-0.604	-0.594
H37Rv_KO_CtpC	-0.911	-0.46
H37Rv_KO_CtpD	-0.193	-0.966
H37Rv_KO_Rv1272	0.096	-1.468
H37Rv_KO_SugABC	0.044	-0.222
H37Rv_KO_MbtN	-0.44	-1.743
Trans05	0.438	-0.575
macrophage_unactivated	0.032	-1.092
IL1	0.178	-1.071
Rapamycin	-0.276	-1.608
Tcell	-0.401	-0.678
GMCSF	-0.52	-0.782
IFNab	-0.157	-2.279
IFNg	-0.013	-1.208
IFNg_GMCSF1	-1.043	-0.93
Rv1432_day32	1.206	0.819
Rv1565c_day32	1.128	-0.333
secA2_input	-0.911	0.161
delta_Rv3594	-0.815	-0.344
delta_Rv3717	-0.322	-1.354
delta_Rv3811	-0.445	-0.413
delta_Rv0954	0.227	-0.16
PonA1	0.007	0.132
EccD1_KO	0.299	0.151
EspI_KO	0.505	-0.416
PE35_KO	0.055	0.925
PPE68_KO	0.061	0.771
glycerol2	0.471	0.186
lignocerate	-0.419	-0.486
oleate	0.922	0.319
phosphatidylcholine	0.0	-0.02
acetate	-0.552	0.047
glucAc	-1.291	0.104
Rv0950ko	0.648	-0.422
Rv1096ko	-0.377	-0.648
Rv3684ko	-1.113	-1.215
delta_otsA_trehalose	0.758	-0.196