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 Rv3671c/-:

update plot	correlation	link to info on gene
Rv2553c/-	(cc=0.7418)	info on Rv2553c/-
Rv1406/fmt	(cc=0.7245)	info on Rv1406/fmt
Rv3101c/ftsX	(cc=0.6982)	info on Rv3101c/ftsX
Rv1836c/-	(cc=0.6799)	info on Rv1836c/-
Rv3789/-	(cc=0.6647)	info on Rv3789/-
Rv3258c/-	(cc=0.6645)	info on Rv3258c/-
Rv0541c/-	(cc=0.6526)	info on Rv0541c/-
Rv1512/epiA	(cc=0.5941)	info on Rv1512/epiA
Rv2507/-	(cc=0.5853)	info on Rv2507/-
Rv1159/pimE	(cc=0.5699)	info on Rv1159/pimE

Correlation of Rv3671c/- with Rv3789/-

Normalized LFCs for Rv3671c/-:
(description and provenance of datasets)

	Rv3671c/-	Rv3789/-
Fe_supp_jason_reseq	0.415	1.994
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-0.201	0.0
Rifampicin4	-0.374	0.0
Ethambutol3	-0.168	0.0
Meropenem3	-0.165	0.0
Vancomycin16	-0.366	0.0
Rv2680_day32	0.0	-0.131
H37Rv_KO_MarP	-4.019	-3.507
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.856
cholesterol	0.0	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.0	0.198
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.127
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	0.633	0.917
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.194	0.533
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	0.309
H37Rv_KO_CtpD	0.241	0.127
H37Rv_KO_Rv1272	0.0	0.141
H37Rv_KO_SugABC	0.099	0.272
H37Rv_KO_MbtN	0.283	0.283
Trans05	0.0	0.131
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-1.199	-0.157
delta_Rv3594	1.672	2.951
delta_Rv3717	0.429	-1.645
delta_Rv3811	1.414	1.487
delta_Rv0954	0.627	-2.257
PonA1	-0.516	-0.398
EccD1_KO	-1.417	-2.773
EspI_KO	-0.724	-3.839
PE35_KO	-0.137	-1.569
PPE68_KO	-0.813	-1.833
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	-2.044	-2.159
Rv1096ko	1.08	-1.068
Rv3684ko	2.473	1.254
delta_otsA_trehalose	1.005	0.0