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 Rv2587c/secD:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2583c/relA	(cc=0.5972)	info on Rv2583c/relA
Rv2060/-	(cc=0.561)	info on Rv2060/-
Rv3540c/ltp2	(cc=0.5498)	info on Rv3540c/ltp2
Rv3224A/-	(cc=0.5371)	info on Rv3224A/-
Rv3550/echA20	(cc=0.5301)	info on Rv3550/echA20
Rv2019/-	(cc=0.5253)	info on Rv2019/-
Rv1027c/kdpE	(cc=0.5239)	info on Rv1027c/kdpE
Rv1590/-	(cc=0.5139)	info on Rv1590/-
Rv1852/ureG	(cc=0.5131)	info on Rv1852/ureG
Rv3874/esxB	(cc=0.5123)	info on Rv3874/esxB

Correlation of Rv2587c/secD with Rv2583c/relA

Normalized LFCs for Rv2587c/secD:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2587c/secD	Rv2583c/relA
Fe_supp_jason_reseq	1.029	-0.268
low_pH_jason_reseq	-1.158	-2.113
NO_jason_reseq	1.089	-0.108
B6_jason_reseq	-1.035	-1.759
MHCII_jason_reseq	-1.046	-0.901
Isoniazid02	1.924	6.0
Rifampicin4	-0.252	1.822
Ethambutol3	0.302	1.732
Meropenem3	-1.695	0.284
Vancomycin16	-0.796	-2.122
Rv2680_day32	0.0	-0.816
H37Rv_KO_MarP	-0.825	-0.814
hypoxia_3wks	-0.459	-3.126
hypoxia_6wks	-0.24	-2.907
glycerol	-0.607	-3.553
cholesterol	-0.435	-3.023
AJ	-0.698	-3.504
Bibs02	-0.898	-2.595
Bibs02c	-0.82	-4.611
BL6	0.225	-0.535
BL6a	-0.595	-3.566
BXD01	-0.182	-1.705
BXD010	-0.629	-2.903
BXD011	-0.383	-2.658
BXD03	-0.664	-3.156
BXD04	-0.607	-2.976
BXD05	-0.527	-2.368
BXD06	-0.29	-3.212
BXD07	-0.543	-1.52
BXD08	-0.521	-3.201
BXD09	-0.196	-2.312
CAST	-0.903	-4.807
CCcont	0.567	-0.405
DS01	-1.16	-5.205
DS02	-1.068	-4.539
DS04	-0.953	-4.819
DS0c	-1.065	-4.917
GP01	-0.387	-2.625
GP02	-0.409	-1.4
GP0c	0.082	-2.515
NOD	-0.88	-4.815
NZO	-0.98	-3.676
PWK	-0.769	-4.322
H37Rv_KO_CtpC	-0.637	-3.067
H37Rv_KO_CtpD	-0.085	-1.532
H37Rv_KO_Rv1272	1.557	-3.023
H37Rv_KO_SugABC	-0.487	-1.743
H37Rv_KO_MbtN	-0.404	0.679
Trans05	-0.393	-2.879
macrophage_unactivated	0.947	-0.253
IL1	0.611	-0.756
Rapamycin	-0.353	-2.105
Tcell	0.349	-1.31
GMCSF	-1.001	-0.673
IFNab	0.0	-0.632
IFNg	0.286	-0.81
IFNg_GMCSF1	-0.361	-2.357
Rv1432_day32	0.0	-2.381
Rv1565c_day32	-0.218	-1.899
secA2_input	-1.868	-0.629
delta_Rv3594	1.155	1.337
delta_Rv3717	0.578	1.472
delta_Rv3811	0.0	1.616
delta_Rv0954	0.0	0.076
PonA1	-0.223	-0.839
EccD1_KO	1.289	-2.664
EspI_KO	0.248	-3.719
PE35_KO	0.254	-2.185
PPE68_KO	0.278	-0.525
glycerol2	0.82	4.726
lignocerate	1.386	1.218
oleate	0.0	-0.196
phosphatidylcholine	1.297	3.018
acetate	2.292	1.18
glucAc	2.14	1.034
Rv0950ko	0.793	-1.851
Rv1096ko	1.252	-0.971
Rv3684ko	0.593	0.305
delta_otsA_trehalose	0.965	2.272