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 Rv1535/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0247c/-	(cc=0.5585)	info on Rv0247c/-
Rv0634A/-	(cc=0.5353)	info on Rv0634A/-
Rv1657/argR	(cc=0.5075)	info on Rv1657/argR
Rv0248c/-	(cc=0.5023)	info on Rv0248c/-
Rv2258c/-	(cc=0.4915)	info on Rv2258c/-
Rv2563/-	(cc=0.4752)	info on Rv2563/-
Rv1287/-	(cc=0.4716)	info on Rv1287/-
Rv1070c/echA8	(cc=0.468)	info on Rv1070c/echA8
Rv1064c/lpqV	(cc=0.4669)	info on Rv1064c/lpqV
Rv0249c/-	(cc=0.4652)	info on Rv0249c/-

Correlation of Rv1535/- with Rv0247c/-

Normalized LFCs for Rv1535/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1535/-	Rv0247c/-
Fe_supp_jason_reseq	0.399	1.983
low_pH_jason_reseq	-0.853	-1.419
NO_jason_reseq	-0.612	-1.231
B6_jason_reseq	-0.911	-0.941
MHCII_jason_reseq	-0.432	-0.572
Isoniazid02	0.233	1.883
Rifampicin4	0.022	0.69
Ethambutol3	1.226	0.804
Meropenem3	-0.019	2.189
Vancomycin16	-0.196	0.353
Rv2680_day32	-0.737	-2.632
H37Rv_KO_MarP	-0.056	0.0
hypoxia_3wks	-0.654	-1.36
hypoxia_6wks	-1.535	-1.934
glycerol	0.291	-2.017
cholesterol	0.142	0.057
AJ	-1.487	-2.318
Bibs02	-1.693	-1.827
Bibs02c	-1.97	-2.09
BL6	-1.302	-1.125
BL6a	-1.317	-1.435
BXD01	-2.09	-1.052
BXD010	-0.445	0.674
BXD011	-1.371	-0.824
BXD03	-1.583	0.42
BXD04	-0.099	-0.549
BXD05	-1.087	-1.21
BXD06	-0.048	-0.768
BXD07	-1.479	-0.702
BXD08	-1.42	-0.674
BXD09	-0.47	-1.135
CAST	-0.209	-1.023
CCcont	-0.813	2.237
DS01	-0.298	-1.359
DS02	-0.181	-0.714
DS04	-0.142	-0.533
DS0c	-0.958	-1.403
GP01	-0.135	-0.986
GP02	-1.529	-0.831
GP0c	-0.593	-1.299
NOD	-0.081	1.534
NZO	-0.386	0.228
PWK	-0.226	-1.584
H37Rv_KO_CtpC	0.14	1.332
H37Rv_KO_CtpD	-0.842	-0.283
H37Rv_KO_Rv1272	-1.306	-0.387
H37Rv_KO_SugABC	-1.698	-0.083
H37Rv_KO_MbtN	-1.974	-0.396
Trans05	0.217	-1.175
macrophage_unactivated	0.59	0.896
IL1	-0.845	-1.05
Rapamycin	-1.596	-0.62
Tcell	-0.59	0.753
GMCSF	-0.874	-1.151
IFNab	-0.946	-1.07
IFNg	-2.138	-1.165
IFNg_GMCSF1	-1.945	-0.412
Rv1432_day32	-2.791	-3.206
Rv1565c_day32	1.085	-0.415
secA2_input	-0.456	0.282
delta_Rv3594	-0.54	-0.788
delta_Rv3717	-1.207	-1.664
delta_Rv3811	-0.062	-0.391
delta_Rv0954	0.903	1.441
PonA1	0.83	1.182
EccD1_KO	-0.625	0.697
EspI_KO	0.088	2.23
PE35_KO	0.992	1.683
PPE68_KO	1.165	1.789
glycerol2	-0.394	1.941
lignocerate	-0.667	-0.32
oleate	0.162	1.418
phosphatidylcholine	-0.046	-0.508
acetate	-1.014	-0.78
glucAc	-1.961	0.3
Rv0950ko	0.618	0.314
Rv1096ko	-0.042	0.063
Rv3684ko	-0.871	-0.072
delta_otsA_trehalose	-1.533	-1.786