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 Rv2549c/vapC20:

update plot	correlation	link to info on gene
Rv2678c/hemE	(cc=0.5222)	info on Rv2678c/hemE
Rv0541c/-	(cc=0.4615)	info on Rv0541c/-
Rv3489/-	(cc=0.4579)	info on Rv3489/-
Rv0092/ctpA	(cc=0.4559)	info on Rv0092/ctpA
Rv0918/-	(cc=0.4515)	info on Rv0918/-
Rv2229c/-	(cc=0.4439)	info on Rv2229c/-
Rv3858c/gltD	(cc=0.4326)	info on Rv3858c/gltD
Rv1035c/-	(cc=0.4271)	info on Rv1035c/-
Rv2036/-	(cc=0.4184)	info on Rv2036/-
Rv3807c/-	(cc=0.4174)	info on Rv3807c/-

Correlation of Rv2549c/vapC20 with Rv3858c/gltD

Normalized LFCs for Rv2549c/vapC20:
(description and provenance of datasets)

	Rv2549c/vapC20	Rv3858c/gltD
Fe_supp_jason_reseq	0.611	0.0
low_pH_jason_reseq	0.017	0.44
NO_jason_reseq	0.026	0.0
B6_jason_reseq	0.279	0.0
MHCII_jason_reseq	0.577	0.0
Isoniazid02	-0.451	0.0
Rifampicin4	0.699	0.0
Ethambutol3	-0.247	0.0
Meropenem3	-0.238	0.0
Vancomycin16	0.186	0.0
Rv2680_day32	1.401	0.0
H37Rv_KO_MarP	0.356	0.0
hypoxia_3wks	-0.323	0.0
hypoxia_6wks	0.608	0.0
glycerol	0.041	0.0
cholesterol	-0.042	0.0
AJ	-0.387	0.0
Bibs02	0.6	0.0
Bibs02c	-0.724	0.0
BL6	-1.04	0.0
BL6a	-0.422	0.0
BXD01	-0.632	0.0
BXD010	0.148	0.0
BXD011	0.148	0.0
BXD03	0.085	0.0
BXD04	-0.437	0.0
BXD05	-0.2	0.0
BXD06	-0.409	0.0
BXD07	-0.21	0.0
BXD08	-0.422	0.0
BXD09	-0.004	0.0
CAST	-0.491	0.0
CCcont	-1.321	0.0
DS01	-0.106	0.0
DS02	0.432	0.0
DS04	0.398	0.0
DS0c	0.272	0.0
GP01	-1.116	0.0
GP02	0.526	0.0
GP0c	-0.349	0.0
NOD	0.103	0.0
NZO	-0.01	0.0
PWK	-0.01	0.0
H37Rv_KO_CtpC	0.134	0.0
H37Rv_KO_CtpD	0.254	0.0
H37Rv_KO_Rv1272	0.372	0.0
H37Rv_KO_SugABC	-0.156	0.0
H37Rv_KO_MbtN	1.087	0.0
Trans05	0.03	0.0
macrophage_unactivated	-0.713	0.0
IL1	-0.605	0.0
Rapamycin	-0.239	0.0
Tcell	-0.352	0.0
GMCSF	0.277	0.0
IFNab	0.112	0.0
IFNg	-0.115	0.0
IFNg_GMCSF1	0.33	0.0
Rv1432_day32	0.282	0.0
Rv1565c_day32	0.1	0.0
secA2_input	-1.126	-1.45
delta_Rv3594	0.6	0.0
delta_Rv3717	0.988	0.0
delta_Rv3811	0.958	0.0
delta_Rv0954	0.05	0.178
PonA1	-0.772	0.0
EccD1_KO	-1.467	-2.592
EspI_KO	-0.559	-2.247
PE35_KO	-0.992	-1.934
PPE68_KO	-1.952	-2.963
glycerol2	-0.363	0.0
lignocerate	-0.14	0.0
oleate	-0.512	0.0
phosphatidylcholine	-0.186	0.0
acetate	-0.113	0.0
glucAc	-0.727	0.0
Rv0950ko	0.495	-0.669
Rv1096ko	0.796	-1.463
Rv3684ko	-0.796	-0.35
delta_otsA_trehalose	1.234	0.0