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 Rv2306B/-:

update plot	correlation	link to info on gene
Rv1123c/bpoB	(cc=0.6083)	info on Rv1123c/bpoB
Rv1208/gpgS	(cc=0.5958)	info on Rv1208/gpgS
Rv1255c/-	(cc=0.5803)	info on Rv1255c/-
Rv2130c/mshC	(cc=0.5716)	info on Rv2130c/mshC
Rv0084/hycD	(cc=0.5535)	info on Rv0084/hycD
Rv3032/-	(cc=0.5338)	info on Rv3032/-
Rv1270c/lprA	(cc=0.5333)	info on Rv1270c/lprA
Rv2980/-	(cc=0.5206)	info on Rv2980/-
Rv3130c/tgs1	(cc=0.4949)	info on Rv3130c/tgs1
Rv1250/-	(cc=0.4925)	info on Rv1250/-

Correlation of Rv2306B/- with Rv2130c/mshC

Normalized LFCs for Rv2306B/-:
(description and provenance of datasets)

	Rv2306B/-	Rv2130c/mshC
Fe_supp_jason_reseq	1.468	0.0
low_pH_jason_reseq	-0.656	0.0
NO_jason_reseq	0.344	0.0
B6_jason_reseq	1.389	0.0
MHCII_jason_reseq	0.455	0.0
Isoniazid02	0.604	0.0
Rifampicin4	0.699	0.0
Ethambutol3	0.226	0.0
Meropenem3	0.131	0.0
Vancomycin16	1.318	0.0
Rv2680_day32	0.267	0.0
H37Rv_KO_MarP	0.023	-0.535
hypoxia_3wks	0.638	0.0
hypoxia_6wks	1.28	0.0
glycerol	-0.554	0.0
cholesterol	-0.643	0.0
AJ	0.091	0.0
Bibs02	-1.763	0.0
Bibs02c	0.499	0.0
BL6	-0.53	0.0
BL6a	-0.613	0.0
BXD01	-0.978	0.0
BXD010	-1.821	0.0
BXD011	-1.145	0.0
BXD03	-0.395	0.0
BXD04	-0.683	0.0
BXD05	-2.755	0.0
BXD06	-0.737	0.0
BXD07	-0.332	0.0
BXD08	-0.796	0.0
BXD09	-0.29	0.0
CAST	-0.127	0.0
CCcont	-0.021	0.0
DS01	0.686	0.0
DS02	-0.246	0.0
DS04	-0.566	0.0
DS0c	0.841	0.0
GP01	-1.931	0.0
GP02	-1.275	0.0
GP0c	-1.254	0.0
NOD	-1.045	0.0
NZO	-1.611	0.0
PWK	0.053	0.0
H37Rv_KO_CtpC	-1.623	0.0
H37Rv_KO_CtpD	-2.477	0.0
H37Rv_KO_Rv1272	-2.246	0.0
H37Rv_KO_SugABC	1.092	0.0
H37Rv_KO_MbtN	-0.641	0.0
Trans05	-0.813	0.0
macrophage_unactivated	2.301	0.0
IL1	-1.308	0.0
Rapamycin	-0.626	0.0
Tcell	-1.111	0.0
GMCSF	-1.595	0.0
IFNab	-0.484	0.0
IFNg	1.211	0.0
IFNg_GMCSF1	0.233	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.716	0.0
secA2_input	-0.235	-0.348
delta_Rv3594	-1.037	0.0
delta_Rv3717	-0.96	0.0
delta_Rv3811	-0.947	0.0
delta_Rv0954	-2.222	0.0
PonA1	-4.022	0.0
EccD1_KO	3.111	0.0
EspI_KO	2.618	0.394
PE35_KO	4.623	2.917
PPE68_KO	5.238	2.713
glycerol2	-1.003	0.0
lignocerate	0.972	0.0
oleate	-1.509	0.0
phosphatidylcholine	0.0	0.0
acetate	2.803	0.0
glucAc	1.681	0.0
Rv0950ko	-0.407	-0.28
Rv1096ko	-0.48	-0.28
Rv3684ko	2.256	1.916
delta_otsA_trehalose	0.739	0.133