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 Rv3768/-:

update plot	correlation	link to info on gene
Rv1208/gpgS	(cc=0.5368)	info on Rv1208/gpgS
Rv2470/glbO	(cc=0.5355)	info on Rv2470/glbO
Rv2847c/cysG	(cc=0.529)	info on Rv2847c/cysG
Rv2087/-	(cc=0.5282)	info on Rv2087/-
Rv2978c/-	(cc=0.5032)	info on Rv2978c/-
Rv3541c/-	(cc=0.4962)	info on Rv3541c/-
Rv1436/gap	(cc=0.4822)	info on Rv1436/gap
Rv2130c/mshC	(cc=0.4755)	info on Rv2130c/mshC
Rv0486/mshA	(cc=0.4692)	info on Rv0486/mshA
Rv2270/lppN	(cc=0.4685)	info on Rv2270/lppN

Correlation of Rv3768/- with Rv2130c/mshC

Normalized LFCs for Rv3768/-:
(description and provenance of datasets)

	Rv3768/-	Rv2130c/mshC
Fe_supp_jason_reseq	-0.077	0.0
low_pH_jason_reseq	-0.494	0.0
NO_jason_reseq	-1.599	0.0
B6_jason_reseq	-0.377	0.0
MHCII_jason_reseq	-0.274	0.0
Isoniazid02	1.406	0.0
Rifampicin4	-0.523	0.0
Ethambutol3	1.936	0.0
Meropenem3	0.04	0.0
Vancomycin16	0.146	0.0
Rv2680_day32	0.386	0.0
H37Rv_KO_MarP	0.346	-0.535
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.512	0.0
glycerol	0.189	0.0
cholesterol	-0.079	0.0
AJ	-0.062	0.0
Bibs02	-1.025	0.0
Bibs02c	-0.429	0.0
BL6	0.195	0.0
BL6a	-0.281	0.0
BXD01	0.473	0.0
BXD010	-0.718	0.0
BXD011	0.256	0.0
BXD03	1.1	0.0
BXD04	0.714	0.0
BXD05	-0.233	0.0
BXD06	-0.217	0.0
BXD07	0.449	0.0
BXD08	0.325	0.0
BXD09	0.282	0.0
CAST	-0.522	0.0
CCcont	0.255	0.0
DS01	0.021	0.0
DS02	-0.54	0.0
DS04	-1.511	0.0
DS0c	-0.614	0.0
GP01	0.255	0.0
GP02	0.873	0.0
GP0c	-0.634	0.0
NOD	0.714	0.0
NZO	-0.474	0.0
PWK	0.966	0.0
H37Rv_KO_CtpC	-1.359	0.0
H37Rv_KO_CtpD	-0.093	0.0
H37Rv_KO_Rv1272	0.521	0.0
H37Rv_KO_SugABC	-0.131	0.0
H37Rv_KO_MbtN	-0.046	0.0
Trans05	-0.814	0.0
macrophage_unactivated	0.297	0.0
IL1	-0.617	0.0
Rapamycin	0.921	0.0
Tcell	-0.215	0.0
GMCSF	0.554	0.0
IFNab	0.063	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	-0.104	0.0
Rv1432_day32	0.691	0.0
Rv1565c_day32	-0.245	0.0
secA2_input	-1.055	-0.348
delta_Rv3594	0.0	0.0
delta_Rv3717	0.356	0.0
delta_Rv3811	0.492	0.0
delta_Rv0954	-0.039	0.0
PonA1	1.255	0.0
EccD1_KO	0.641	0.0
EspI_KO	1.149	0.394
PE35_KO	2.368	2.917
PPE68_KO	2.451	2.713
glycerol2	-0.723	0.0
lignocerate	-0.201	0.0
oleate	-0.912	0.0
phosphatidylcholine	-0.584	0.0
acetate	-0.678	0.0
glucAc	-0.441	0.0
Rv0950ko	0.238	-0.28
Rv1096ko	0.103	-0.28
Rv3684ko	0.223	1.916
delta_otsA_trehalose	1.11	0.133