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 Rv0027/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1897c/-	(cc=0.5025)	info on Rv1897c/-
Rv0765c/-	(cc=0.5012)	info on Rv0765c/-
Rv2083/-	(cc=0.4876)	info on Rv2083/-
Rv2055c/rpsR2	(cc=0.4744)	info on Rv2055c/rpsR2
Rv2021c/-	(cc=0.4691)	info on Rv2021c/-
Rv0813c/-	(cc=0.4672)	info on Rv0813c/-
Rv1992c/ctpG	(cc=0.4661)	info on Rv1992c/ctpG
Rv1875/-	(cc=0.4575)	info on Rv1875/-
Rv3866/espG1	(cc=0.4541)	info on Rv3866/espG1
Rv0806c/cpsY	(cc=0.4477)	info on Rv0806c/cpsY

Correlation of Rv0027/- with Rv1897c/-

Normalized LFCs for Rv0027/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0027/-	Rv1897c/-
Fe_supp_jason_reseq	-2.546	-1.2
low_pH_jason_reseq	-0.015	-0.684
NO_jason_reseq	-0.436	0.63
B6_jason_reseq	-1.991	-1.711
MHCII_jason_reseq	-0.745	-1.238
Isoniazid02	0.237	-0.422
Rifampicin4	1.086	0.942
Ethambutol3	0.364	0.193
Meropenem3	0.052	0.97
Vancomycin16	0.761	0.639
Rv2680_day32	0.786	-0.262
H37Rv_KO_MarP	-0.121	1.054
hypoxia_3wks	0.594	0.69
hypoxia_6wks	-1.449	-0.267
glycerol	-0.275	-1.902
cholesterol	-1.602	-0.343
AJ	-0.101	0.8
Bibs02	-1.619	0.07
Bibs02c	0.931	-0.953
BL6	-2.078	-2.352
BL6a	0.936	-0.319
BXD01	-0.862	-0.516
BXD010	-1.999	-0.409
BXD011	-0.237	-0.798
BXD03	0.31	-0.46
BXD04	-0.977	-1.072
BXD05	-1.126	-1.167
BXD06	-0.884	-0.278
BXD07	-0.223	-0.829
BXD08	-0.992	-0.075
BXD09	-0.93	0.096
CAST	-0.951	0.619
CCcont	-2.48	-1.691
DS01	-0.156	-0.857
DS02	-0.969	-2.675
DS04	-1.921	0.828
DS0c	-2.684	-0.646
GP01	-0.506	-0.662
GP02	0.404	0.871
GP0c	-0.381	0.079
NOD	-2.224	-0.578
NZO	-0.889	-0.637
PWK	-0.575	0.699
H37Rv_KO_CtpC	-0.302	-0.039
H37Rv_KO_CtpD	2.677	-1.121
H37Rv_KO_Rv1272	1.308	0.033
H37Rv_KO_SugABC	1.064	-2.014
H37Rv_KO_MbtN	-0.769	-2.041
Trans05	-0.421	-1.11
macrophage_unactivated	0.363	2.187
IL1	-0.925	0.228
Rapamycin	0.988	0.829
Tcell	-0.134	-0.199
GMCSF	1.682	2.693
IFNab	0.877	0.118
IFNg	0.307	-0.82
IFNg_GMCSF1	1.012	1.049
Rv1432_day32	-0.434	-0.454
Rv1565c_day32	0.362	0.703
secA2_input	0.585	-1.584
delta_Rv3594	2.226	1.262
delta_Rv3717	2.975	0.979
delta_Rv3811	2.277	2.58
delta_Rv0954	0.994	1.11
PonA1	-0.585	0.137
EccD1_KO	0.536	2.5
EspI_KO	-0.234	1.015
PE35_KO	-0.117	0.111
PPE68_KO	-0.218	0.182
glycerol2	-0.657	-0.321
lignocerate	-1.218	-1.414
oleate	0.181	0.383
phosphatidylcholine	-0.819	-0.392
acetate	-1.752	-1.662
glucAc	-2.515	-3.119
Rv0950ko	0.124	-1.462
Rv1096ko	0.163	-0.226
Rv3684ko	-0.943	-1.48
delta_otsA_trehalose	-0.979	-0.66