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 Rv0207c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2638/-	(cc=0.5447)	info on Rv2638/-
Rv2078/-	(cc=0.5269)	info on Rv2078/-
Rv1755c/plcD	(cc=0.5175)	info on Rv1755c/plcD
Rv0278c/PE_PGRS3	(cc=0.5105)	info on Rv0278c/PE_PGRS3
Rv1103c/mazE3	(cc=0.5019)	info on Rv1103c/mazE3
Rv0602c/tcrA	(cc=0.5004)	info on Rv0602c/tcrA
Rv1862/adhA	(cc=0.5)	info on Rv1862/adhA
Rv2281/pitB	(cc=0.493)	info on Rv2281/pitB
Rv2550c/vapB20	(cc=0.4862)	info on Rv2550c/vapB20
Rv3197A/whiB7	(cc=0.4837)	info on Rv3197A/whiB7

Correlation of Rv0207c/- with Rv2638/-

Normalized LFCs for Rv0207c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0207c/-	Rv2638/-
Fe_supp_jason_reseq	-0.677	-0.785
low_pH_jason_reseq	0.746	0.512
NO_jason_reseq	-0.541	0.719
B6_jason_reseq	0.581	0.607
MHCII_jason_reseq	-0.156	1.199
Isoniazid02	0.976	-0.137
Rifampicin4	-1.107	0.279
Ethambutol3	-0.4	-0.146
Meropenem3	-0.156	-0.06
Vancomycin16	-0.992	0.042
Rv2680_day32	1.662	0.944
H37Rv_KO_MarP	-1.595	-0.045
hypoxia_3wks	0.335	-0.55
hypoxia_6wks	1.574	1.28
glycerol	-0.228	-0.102
cholesterol	-0.364	0.163
AJ	1.348	0.091
Bibs02	-0.033	-0.056
Bibs02c	0.483	0.061
BL6	1.173	0.021
BL6a	0.136	-0.913
BXD01	0.777	-1.3
BXD010	-0.787	-0.34
BXD011	-1.054	-2.215
BXD03	-0.062	-1.293
BXD04	-1.716	0.099
BXD05	-0.963	-0.989
BXD06	0.471	-1.212
BXD07	0.533	-1.905
BXD08	0.696	-1.813
BXD09	0.325	-0.932
CAST	-0.45	-0.701
CCcont	1.311	-0.883
DS01	0.477	0.272
DS02	-1.799	-0.925
DS04	-0.298	0.824
DS0c	0.806	0.118
GP01	0.855	-0.313
GP02	0.996	0.429
GP0c	1.328	1.536
NOD	1.764	-0.122
NZO	0.532	0.842
PWK	-0.126	-0.597
H37Rv_KO_CtpC	-0.372	-0.357
H37Rv_KO_CtpD	-2.097	-0.33
H37Rv_KO_Rv1272	-0.542	-1.469
H37Rv_KO_SugABC	1.32	-1.338
H37Rv_KO_MbtN	1.667	-0.865
Trans05	0.534	-1.674
macrophage_unactivated	0.41	-0.568
IL1	-1.427	-1.201
Rapamycin	-0.758	-1.182
Tcell	-0.111	-0.968
GMCSF	-0.312	-1.096
IFNab	-0.547	-0.928
IFNg	-1.831	-0.871
IFNg_GMCSF1	-1.819	-1.436
Rv1432_day32	0.777	0.495
Rv1565c_day32	1.797	-0.648
secA2_input	-1.835	-0.291
delta_Rv3594	-0.164	-1.309
delta_Rv3717	1.721	0.204
delta_Rv3811	0.022	-0.373
delta_Rv0954	-0.118	0.349
PonA1	-0.237	-0.193
EccD1_KO	-0.674	0.181
EspI_KO	-1.546	-0.853
PE35_KO	-1.619	-0.49
PPE68_KO	-2.07	-0.403
glycerol2	3.419	2.169
lignocerate	3.87	2.979
oleate	-0.522	-0.658
phosphatidylcholine	3.028	2.657
acetate	3.498	2.675
glucAc	2.814	2.4
Rv0950ko	0.103	1.396
Rv1096ko	0.033	0.67
Rv3684ko	-0.553	0.508
delta_otsA_trehalose	-2.338	-0.228