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 Rv0647c/-

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

	Rv0576/-	Rv0647c/-
Fe_supp_jason_reseq	-0.308	-0.965
low_pH_jason_reseq	-0.475	-0.893
NO_jason_reseq	-0.205	0.263
B6_jason_reseq	-1.345	-0.411
MHCII_jason_reseq	-0.823	-1.082
Isoniazid02	0.422	-0.678
Rifampicin4	-0.292	0.176
Ethambutol3	0.311	-0.283
Meropenem3	-0.374	0.68
Vancomycin16	0.082	0.377
Rv2680_day32	0.725	1.282
H37Rv_KO_MarP	0.529	0.083
hypoxia_3wks	0.06	0.594
hypoxia_6wks	0.319	0.593
glycerol	-1.257	0.401
cholesterol	0.345	-0.545
AJ	-0.062	-0.57
Bibs02	0.494	0.789
Bibs02c	-0.611	-0.45
BL6	-0.841	-0.232
BL6a	0.319	0.27
BXD01	0.926	0.828
BXD010	0.953	-0.096
BXD011	0.639	1.056
BXD03	-0.279	0.805
BXD04	0.42	0.494
BXD05	1.16	1.346
BXD06	1.095	1.106
BXD07	-0.037	0.382
BXD08	1.008	2.15
BXD09	0.57	0.25
CAST	-0.26	-0.174
CCcont	0.223	-0.977
DS01	-0.267	0.166
DS02	-0.878	-0.468
DS04	1.067	0.424
DS0c	-0.379	0.431
GP01	0.511	2.005
GP02	2.078	1.541
GP0c	1.018	1.998
NOD	0.06	-1.181
NZO	0.104	0.14
PWK	-0.193	0.75
H37Rv_KO_CtpC	0.405	-0.45
H37Rv_KO_CtpD	0.656	1.267
H37Rv_KO_Rv1272	0.585	0.586
H37Rv_KO_SugABC	-0.99	-0.901
H37Rv_KO_MbtN	0.013	1.806
Trans05	0.068	0.665
macrophage_unactivated	0.388	2.25
IL1	0.86	0.955
Rapamycin	1.2	1.182
Tcell	1.03	1.254
GMCSF	-0.084	2.131
IFNab	0.327	0.774
IFNg	0.329	0.861
IFNg_GMCSF1	0.198	1.012
Rv1432_day32	0.721	1.669
Rv1565c_day32	0.305	0.359
secA2_input	-0.504	0.606
delta_Rv3594	0.919	-1.41
delta_Rv3717	-0.263	-0.077
delta_Rv3811	-0.81	-0.578
delta_Rv0954	0.102	-1.143
PonA1	0.126	-1.249
EccD1_KO	-0.444	-0.099
EspI_KO	-0.208	-0.536
PE35_KO	0.283	-0.359
PPE68_KO	-0.234	-0.394
glycerol2	-1.138	-0.319
lignocerate	-1.622	-0.229
oleate	-0.322	0.525
phosphatidylcholine	-0.958	-0.319
acetate	-1.012	0.223
glucAc	-0.486	-0.569
Rv0950ko	0.09	-0.603
Rv1096ko	0.709	-0.793
Rv3684ko	0.77	-1.189
delta_otsA_trehalose	-2.117	-2.372