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 Rv3363c/-:

update plot	correlation	link to info on gene
Rv1564c/treX	(cc=0.5751)	info on Rv1564c/treX
Rv3449/mycP4	(cc=0.5712)	info on Rv3449/mycP4
Rv3839/-	(cc=0.5477)	info on Rv3839/-
Rv2128/-	(cc=0.5268)	info on Rv2128/-
Rv3168/-	(cc=0.518)	info on Rv3168/-
Rv0526/-	(cc=0.5162)	info on Rv0526/-
Rv3455c/truA	(cc=0.5158)	info on Rv3455c/truA
Rv2909c/rpsP	(cc=0.5009)	info on Rv2909c/rpsP
Rv3710/leuA	(cc=0.5006)	info on Rv3710/leuA
Rv0592/mce2D	(cc=0.4948)	info on Rv0592/mce2D

Correlation of Rv3363c/- with Rv0526/-

Normalized LFCs for Rv3363c/-:
(description and provenance of datasets)

	Rv3363c/-	Rv0526/-
Fe_supp_jason_reseq	0.289	0.0
low_pH_jason_reseq	0.775	0.0
NO_jason_reseq	-0.63	0.0
B6_jason_reseq	0.575	0.0
MHCII_jason_reseq	0.795	0.0
Isoniazid02	0.355	0.0
Rifampicin4	-1.194	0.0
Ethambutol3	-0.557	0.0
Meropenem3	-0.158	0.0
Vancomycin16	-0.172	0.0
Rv2680_day32	-0.786	0.0
H37Rv_KO_MarP	0.014	0.0
hypoxia_3wks	-0.231	0.0
hypoxia_6wks	0.023	0.0
glycerol	0.408	0.0
cholesterol	0.45	0.0
AJ	0.079	0.0
Bibs02	0.616	0.0
Bibs02c	-0.821	0.0
BL6	0.017	0.0
BL6a	-0.25	0.0
BXD01	-0.374	0.0
BXD010	-0.073	0.0
BXD011	0.018	0.0
BXD03	0.449	0.0
BXD04	-0.044	0.0
BXD05	-0.137	0.0
BXD06	-0.136	0.0
BXD07	-0.12	0.0
BXD08	0.01	0.0
BXD09	-0.222	0.0
CAST	0.506	0.0
CCcont	-0.697	0.0
DS01	-0.51	0.0
DS02	-0.109	0.0
DS04	-1.105	0.0
DS0c	-0.396	0.0
GP01	-1.314	0.0
GP02	-0.626	0.0
GP0c	0.162	0.0
NOD	-0.096	0.0
NZO	-0.465	0.0
PWK	-0.142	0.0
H37Rv_KO_CtpC	0.252	0.0
H37Rv_KO_CtpD	-1.654	0.0
H37Rv_KO_Rv1272	0.584	0.0
H37Rv_KO_SugABC	-0.14	0.0
H37Rv_KO_MbtN	-0.538	0.0
Trans05	1.0	0.0
macrophage_unactivated	-0.448	0.0
IL1	0.359	0.0
Rapamycin	-0.322	0.0
Tcell	-0.808	0.0
GMCSF	-0.763	0.0
IFNab	0.0	0.0
IFNg	0.045	0.0
IFNg_GMCSF1	0.666	0.0
Rv1432_day32	1.076	0.0
Rv1565c_day32	-0.488	0.0
secA2_input	-0.164	-0.412
delta_Rv3594	-0.285	0.0
delta_Rv3717	-1.44	0.0
delta_Rv3811	-0.671	0.205
delta_Rv0954	-1.07	0.0
PonA1	-1.526	0.0
EccD1_KO	0.0	0.0
EspI_KO	-1.047	0.0
PE35_KO	-0.866	0.767
PPE68_KO	-1.289	0.442
glycerol2	-2.812	-1.499
lignocerate	-1.844	-1.303
oleate	-2.2	-1.517
phosphatidylcholine	-2.286	-1.499
acetate	-2.276	-1.779
glucAc	-1.217	-1.106
Rv0950ko	0.196	0.416
Rv1096ko	0.501	0.0
Rv3684ko	-0.147	0.0
delta_otsA_trehalose	4.02	0.0