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 Rv3398c/idsA1

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

	Rv0576/-	Rv3398c/idsA1
Fe_supp_jason_reseq	-0.308	-0.677
low_pH_jason_reseq	-0.475	0.694
NO_jason_reseq	-0.205	-0.11
B6_jason_reseq	-1.345	-2.06
MHCII_jason_reseq	-0.823	-2.841
Isoniazid02	0.422	2.012
Rifampicin4	-0.292	-0.403
Ethambutol3	0.311	1.411
Meropenem3	-0.374	-0.255
Vancomycin16	0.082	0.358
Rv2680_day32	0.725	0.041
H37Rv_KO_MarP	0.529	0.165
hypoxia_3wks	0.06	0.359
hypoxia_6wks	0.319	0.748
glycerol	-1.257	-1.229
cholesterol	0.345	-0.24
AJ	-0.062	-1.287
Bibs02	0.494	-0.303
Bibs02c	-0.611	-0.762
BL6	-0.841	-0.208
BL6a	0.319	1.373
BXD01	0.926	1.355
BXD010	0.953	1.403
BXD011	0.639	1.139
BXD03	-0.279	1.948
BXD04	0.42	1.608
BXD05	1.16	1.701
BXD06	1.095	1.245
BXD07	-0.037	1.105
BXD08	1.008	1.062
BXD09	0.57	1.379
CAST	-0.26	-0.302
CCcont	0.223	0.173
DS01	-0.267	0.339
DS02	-0.878	0.876
DS04	1.067	0.698
DS0c	-0.379	-1.092
GP01	0.511	-0.164
GP02	2.078	0.722
GP0c	1.018	-1.112
NOD	0.06	-0.07
NZO	0.104	-0.062
PWK	-0.193	0.117
H37Rv_KO_CtpC	0.405	2.762
H37Rv_KO_CtpD	0.656	1.542
H37Rv_KO_Rv1272	0.585	2.022
H37Rv_KO_SugABC	-0.99	2.161
H37Rv_KO_MbtN	0.013	0.0
Trans05	0.068	0.986
macrophage_unactivated	0.388	1.787
IL1	0.86	1.317
Rapamycin	1.2	1.406
Tcell	1.03	1.16
GMCSF	-0.084	1.79
IFNab	0.327	1.427
IFNg	0.329	1.224
IFNg_GMCSF1	0.198	1.694
Rv1432_day32	0.721	0.85
Rv1565c_day32	0.305	1.591
secA2_input	-0.504	0.0
delta_Rv3594	0.919	-0.436
delta_Rv3717	-0.263	-1.081
delta_Rv3811	-0.81	-0.998
delta_Rv0954	0.102	-0.585
PonA1	0.126	0.275
EccD1_KO	-0.444	-0.678
EspI_KO	-0.208	0.61
PE35_KO	0.283	0.624
PPE68_KO	-0.234	1.328
glycerol2	-1.138	-1.327
lignocerate	-1.622	-1.122
oleate	-0.322	0.22
phosphatidylcholine	-0.958	-0.896
acetate	-1.012	-1.287
glucAc	-0.486	-1.381
Rv0950ko	0.09	-0.06
Rv1096ko	0.709	1.04
Rv3684ko	0.77	-0.4
delta_otsA_trehalose	-2.117	0.58