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 Rv0576/-:

update plot	correlation	link to info on gene
Rv2695/-	(cc=0.5209)	info on Rv2695/-
Rv3847/-	(cc=0.5112)	info on Rv3847/-
Rv3050c/-	(cc=0.498)	info on Rv3050c/-
Rv1752/-	(cc=0.4943)	info on Rv1752/-
Rv3521/-	(cc=0.4913)	info on Rv3521/-
Rv0222/echA1	(cc=0.4889)	info on Rv0222/echA1
Rv2857c/-	(cc=0.4882)	info on Rv2857c/-
Rv3398c/idsA1	(cc=0.488)	info on Rv3398c/idsA1
Rv0647c/-	(cc=0.4856)	info on Rv0647c/-
Rv1128c/-	(cc=0.4766)	info on Rv1128c/-

Correlation of Rv0576/- with Rv2695/-

Normalized LFCs for Rv0576/-:
(description and provenance of datasets)

	Rv0576/-	Rv2695/-
Fe_supp_jason_reseq	-0.308	0.0
low_pH_jason_reseq	-0.475	-0.8
NO_jason_reseq	-0.205	0.711
B6_jason_reseq	-1.345	-0.11
MHCII_jason_reseq	-0.823	0.544
Isoniazid02	0.422	0.664
Rifampicin4	-0.292	0.799
Ethambutol3	0.311	0.759
Meropenem3	-0.374	0.167
Vancomycin16	0.082	0.074
Rv2680_day32	0.725	1.658
H37Rv_KO_MarP	0.529	-0.137
hypoxia_3wks	0.06	0.0
hypoxia_6wks	0.319	0.85
glycerol	-1.257	-0.098
cholesterol	0.345	0.328
AJ	-0.062	1.126
Bibs02	0.494	1.22
Bibs02c	-0.611	0.527
BL6	-0.841	0.703
BL6a	0.319	0.743
BXD01	0.926	1.038
BXD010	0.953	0.948
BXD011	0.639	0.722
BXD03	-0.279	0.514
BXD04	0.42	0.342
BXD05	1.16	1.327
BXD06	1.095	0.224
BXD07	-0.037	0.771
BXD08	1.008	1.103
BXD09	0.57	0.479
CAST	-0.26	0.053
CCcont	0.223	0.178
DS01	-0.267	1.935
DS02	-0.878	1.531
DS04	1.067	2.09
DS0c	-0.379	0.965
GP01	0.511	2.283
GP02	2.078	2.524
GP0c	1.018	2.06
NOD	0.06	-0.146
NZO	0.104	0.704
PWK	-0.193	0.432
H37Rv_KO_CtpC	0.405	1.098
H37Rv_KO_CtpD	0.656	0.851
H37Rv_KO_Rv1272	0.585	1.466
H37Rv_KO_SugABC	-0.99	1.415
H37Rv_KO_MbtN	0.013	1.95
Trans05	0.068	1.609
macrophage_unactivated	0.388	0.366
IL1	0.86	1.038
Rapamycin	1.2	1.04
Tcell	1.03	0.358
GMCSF	-0.084	-0.071
IFNab	0.327	-0.039
IFNg	0.329	-0.861
IFNg_GMCSF1	0.198	0.167
Rv1432_day32	0.721	2.315
Rv1565c_day32	0.305	-0.531
secA2_input	-0.504	-0.495
delta_Rv3594	0.919	-0.424
delta_Rv3717	-0.263	-0.293
delta_Rv3811	-0.81	-0.958
delta_Rv0954	0.102	-0.603
PonA1	0.126	-1.173
EccD1_KO	-0.444	0.681
EspI_KO	-0.208	0.08
PE35_KO	0.283	0.379
PPE68_KO	-0.234	0.397
glycerol2	-1.138	-0.577
lignocerate	-1.622	-0.828
oleate	-0.322	-0.478
phosphatidylcholine	-0.958	-2.76
acetate	-1.012	-0.771
glucAc	-0.486	-0.837
Rv0950ko	0.09	0.802
Rv1096ko	0.709	0.365
Rv3684ko	0.77	0.652
delta_otsA_trehalose	-2.117	-1.39