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 Rv1203c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0378/-	(cc=0.4772)	info on Rv0378/-
Rv2426c/-	(cc=0.4567)	info on Rv2426c/-
Rv2007c/fdxA	(cc=0.4422)	info on Rv2007c/fdxA
Rv2644c/-	(cc=0.4303)	info on Rv2644c/-
Rv2424c/-	(cc=0.4186)	info on Rv2424c/-
Rv1574/-	(cc=0.4139)	info on Rv1574/-
Rv2331A/-	(cc=0.4058)	info on Rv2331A/-
Rv2276/cyp121	(cc=0.4048)	info on Rv2276/cyp121
Rv1704c/cycA	(cc=0.4044)	info on Rv1704c/cycA
Rv2813/-	(cc=0.3989)	info on Rv2813/-

Correlation of Rv1203c/- with Rv0378/-

Normalized LFCs for Rv1203c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1203c/-	Rv0378/-
Fe_supp_jason_reseq	0.665	-0.905
low_pH_jason_reseq	-0.574	0.348
NO_jason_reseq	0.189	0.129
B6_jason_reseq	0.694	2.647
MHCII_jason_reseq	0.158	0.024
Isoniazid02	-0.287	0.691
Rifampicin4	0.487	0.831
Ethambutol3	0.1	0.249
Meropenem3	-0.066	-1.058
Vancomycin16	0.313	0.31
Rv2680_day32	-0.519	-1.357
H37Rv_KO_MarP	0.236	1.101
hypoxia_3wks	-0.227	-0.379
hypoxia_6wks	-0.119	-0.301
glycerol	0.136	-0.124
cholesterol	0.07	-0.115
AJ	1.598	0.529
Bibs02	0.089	1.779
Bibs02c	0.483	0.94
BL6	0.63	-1.203
BL6a	0.133	-0.514
BXD01	-0.272	-1.876
BXD010	-0.052	-0.854
BXD011	1.072	-0.659
BXD03	0.165	-0.211
BXD04	0.095	-0.64
BXD05	-0.492	-1.511
BXD06	0.065	-2.016
BXD07	-0.272	-1.113
BXD08	0.795	-0.194
BXD09	-0.554	-1.03
CAST	0.155	1.865
CCcont	0.156	-0.436
DS01	-0.145	0.32
DS02	-0.646	0.682
DS04	0.51	-2.228
DS0c	-0.251	0.357
GP01	-1.661	-2.491
GP02	-0.645	-1.458
GP0c	1.162	-1.223
NOD	2.008	0.075
NZO	1.017	0.637
PWK	0.485	0.526
H37Rv_KO_CtpC	0.362	0.488
H37Rv_KO_CtpD	-0.311	-0.261
H37Rv_KO_Rv1272	0.392	-3.431
H37Rv_KO_SugABC	-1.572	-2.499
H37Rv_KO_MbtN	-0.362	1.48
Trans05	0.076	-3.297
macrophage_unactivated	-0.862	-0.524
IL1	-0.267	-1.569
Rapamycin	-0.276	-2.612
Tcell	0.427	-0.593
GMCSF	-0.343	1.188
IFNab	-0.692	-1.599
IFNg	-0.497	-0.278
IFNg_GMCSF1	2.093	-0.946
Rv1432_day32	-0.941	0.0
Rv1565c_day32	-0.794	-1.579
secA2_input	0.152	1.711
delta_Rv3594	-1.078	-2.743
delta_Rv3717	0.128	-2.078
delta_Rv3811	-1.515	-6.0
delta_Rv0954	-0.578	-2.875
PonA1	-0.344	-2.688
EccD1_KO	0.802	0.095
EspI_KO	2.013	1.035
PE35_KO	1.07	0.636
PPE68_KO	0.461	0.534
glycerol2	0.961	0.68
lignocerate	1.31	1.808
oleate	-0.807	0.0
phosphatidylcholine	0.933	0.819
acetate	0.791	3.139
glucAc	1.792	2.721
Rv0950ko	-0.691	-0.54
Rv1096ko	0.265	-0.971
Rv3684ko	-0.236	-2.414
delta_otsA_trehalose	0.683	0.468