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 Rv2216/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3283/sseA	(cc=0.5498)	info on Rv3283/sseA
Rv3284/-	(cc=0.542)	info on Rv3284/-
Rv3651/-	(cc=0.5336)	info on Rv3651/-
Rv2564/glnQ	(cc=0.4917)	info on Rv2564/glnQ
Rv0180c/-	(cc=0.4774)	info on Rv0180c/-
Rv1592c/-	(cc=0.4655)	info on Rv1592c/-
Rv0406c/-	(cc=0.4519)	info on Rv0406c/-
Rv2563/-	(cc=0.4454)	info on Rv2563/-
Rv2943A/-	(cc=0.4418)	info on Rv2943A/-
Rv0436c/pssA	(cc=0.4345)	info on Rv0436c/pssA

Correlation of Rv2216/- with Rv3283/sseA

Normalized LFCs for Rv2216/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2216/-	Rv3283/sseA
Fe_supp_jason_reseq	1.23	3.375
low_pH_jason_reseq	-0.217	-0.979
NO_jason_reseq	-0.446	-1.173
B6_jason_reseq	0.058	-0.649
MHCII_jason_reseq	0.678	0.406
Isoniazid02	0.115	-1.008
Rifampicin4	-0.726	-2.258
Ethambutol3	-1.088	-1.254
Meropenem3	0.981	-2.709
Vancomycin16	-0.584	-2.735
Rv2680_day32	-1.118	-2.317
H37Rv_KO_MarP	-1.349	-1.319
hypoxia_3wks	-0.327	-2.181
hypoxia_6wks	-2.443	-1.934
glycerol	0.979	3.882
cholesterol	1.013	6.0
AJ	0.704	-1.793
Bibs02	0.721	-0.796
Bibs02c	1.279	0.235
BL6	-0.424	-1.937
BL6a	0.28	-0.725
BXD01	-0.774	-1.887
BXD010	-0.118	-1.856
BXD011	-0.597	-1.346
BXD03	-1.104	-2.094
BXD04	0.0	-1.915
BXD05	-0.017	-1.95
BXD06	-1.127	-2.067
BXD07	-0.017	-2.006
BXD08	-0.016	-1.927
BXD09	-0.129	-2.176
CAST	0.028	0.537
CCcont	0.984	0.199
DS01	1.605	2.616
DS02	0.534	0.852
DS04	2.354	1.186
DS0c	2.137	2.855
GP01	-0.78	-1.529
GP02	-0.441	-1.289
GP0c	-0.397	-2.014
NOD	0.661	0.952
NZO	0.098	-1.542
PWK	1.506	-0.59
H37Rv_KO_CtpC	0.947	0.554
H37Rv_KO_CtpD	-0.365	-0.229
H37Rv_KO_Rv1272	0.862	-0.956
H37Rv_KO_SugABC	-1.125	-0.926
H37Rv_KO_MbtN	-0.962	-0.797
Trans05	-0.313	-1.893
macrophage_unactivated	-0.581	0.0
IL1	-0.845	-0.955
Rapamycin	-0.313	-1.372
Tcell	-1.502	-1.049
GMCSF	-0.412	-1.18
IFNab	0.254	-1.351
IFNg	0.853	-1.195
IFNg_GMCSF1	0.075	-1.405
Rv1432_day32	-0.037	-0.999
Rv1565c_day32	0.235	1.848
secA2_input	-1.162	0.881
delta_Rv3594	-0.323	-0.569
delta_Rv3717	-1.106	-1.432
delta_Rv3811	-1.089	-1.487
delta_Rv0954	0.39	3.34
PonA1	0.985	4.717
EccD1_KO	0.503	1.085
EspI_KO	0.274	0.665
PE35_KO	1.406	4.078
PPE68_KO	1.683	3.072
glycerol2	-0.544	-1.401
lignocerate	-0.649	-1.494
oleate	1.811	-2.752
phosphatidylcholine	-0.282	-1.162
acetate	-0.12	-0.377
glucAc	0.204	-1.463
Rv0950ko	0.642	-0.585
Rv1096ko	0.76	-0.148
Rv3684ko	1.1	0.039
delta_otsA_trehalose	0.081	-0.281