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 Rv3776/-:

update plot	correlation	link to info on gene
Rv2414c/-	(cc=0.4834)	info on Rv2414c/-
Rv3665c/dppB	(cc=0.4675)	info on Rv3665c/dppB
Rv1177/fdxC	(cc=0.4484)	info on Rv1177/fdxC
Rv2693c/-	(cc=0.4458)	info on Rv2693c/-
Rv2149c/yfiH	(cc=0.4366)	info on Rv2149c/yfiH
Rv2265/-	(cc=0.4215)	info on Rv2265/-
Rv0836c/-	(cc=0.4204)	info on Rv0836c/-
Rv3440c/-	(cc=0.414)	info on Rv3440c/-
Rv1944c/-	(cc=0.4056)	info on Rv1944c/-
Rv0209/-	(cc=0.4034)	info on Rv0209/-

Correlation of Rv3776/- with Rv1177/fdxC

Normalized LFCs for Rv3776/-:
(description and provenance of datasets)

	Rv3776/-	Rv1177/fdxC
Fe_supp_jason_reseq	-0.406	0.0
low_pH_jason_reseq	1.193	0.0
NO_jason_reseq	0.034	0.0
B6_jason_reseq	-0.219	0.0
MHCII_jason_reseq	-0.207	0.0
Isoniazid02	0.655	0.0
Rifampicin4	-0.255	0.0
Ethambutol3	1.284	0.0
Meropenem3	-0.35	0.0
Vancomycin16	-0.186	0.0
Rv2680_day32	0.307	0.0
H37Rv_KO_MarP	0.316	0.0
hypoxia_3wks	-0.271	0.0
hypoxia_6wks	-0.468	0.0
glycerol	0.12	0.0
cholesterol	-0.169	0.0
AJ	0.282	0.0
Bibs02	0.642	0.0
Bibs02c	0.67	0.0
BL6	0.355	0.0
BL6a	0.263	0.0
BXD01	0.235	0.0
BXD010	-0.444	0.0
BXD011	-0.327	0.127
BXD03	-0.009	0.0
BXD04	0.503	0.0
BXD05	-0.042	0.0
BXD06	-0.213	0.0
BXD07	-0.182	0.0
BXD08	0.198	0.0
BXD09	-0.339	0.0
CAST	0.404	0.0
CCcont	0.173	0.0
DS01	0.438	0.0
DS02	0.912	0.0
DS04	0.485	0.0
DS0c	0.625	0.0
GP01	0.849	0.271
GP02	1.226	0.686
GP0c	0.624	0.0
NOD	0.867	0.0
NZO	0.221	0.0
PWK	0.139	0.0
H37Rv_KO_CtpC	0.351	0.0
H37Rv_KO_CtpD	0.406	0.0
H37Rv_KO_Rv1272	-0.244	0.0
H37Rv_KO_SugABC	0.436	0.0
H37Rv_KO_MbtN	1.29	0.196
Trans05	0.187	0.0
macrophage_unactivated	-0.139	0.0
IL1	0.273	0.0
Rapamycin	0.331	0.0
Tcell	0.14	0.0
GMCSF	0.024	0.0
IFNab	0.051	0.0
IFNg	-0.069	0.0
IFNg_GMCSF1	0.239	0.0
Rv1432_day32	0.716	0.0
Rv1565c_day32	0.46	0.0
secA2_input	0.668	1.199
delta_Rv3594	-0.541	0.0
delta_Rv3717	-0.22	0.0
delta_Rv3811	-0.541	0.0
delta_Rv0954	-0.052	0.0
PonA1	-0.172	0.159
EccD1_KO	-0.247	-0.414
EspI_KO	-0.764	-0.359
PE35_KO	-0.26	0.0
PPE68_KO	-0.397	-0.841
glycerol2	0.182	0.0
lignocerate	0.274	0.0
oleate	0.133	0.0
phosphatidylcholine	0.22	0.0
acetate	0.126	0.0
glucAc	0.059	0.0
Rv0950ko	0.419	0.0
Rv1096ko	0.127	0.0
Rv3684ko	0.219	0.0
delta_otsA_trehalose	-1.085	-0.654