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 Rv3175/-:

update plot	correlation	link to info on gene
Rv2772c/-	(cc=0.4656)	info on Rv2772c/-
Rv0875c/-	(cc=0.4494)	info on Rv0875c/-
Rv0740/-	(cc=0.4435)	info on Rv0740/-
Rv0418/lpqL	(cc=0.437)	info on Rv0418/lpqL
Rv3741c/-	(cc=0.4288)	info on Rv3741c/-
Rv3220c/-	(cc=0.4274)	info on Rv3220c/-
Rv2643/arsC	(cc=0.4258)	info on Rv2643/arsC
Rv3395A/-	(cc=0.4241)	info on Rv3395A/-
Rv3298c/lpqC	(cc=0.4214)	info on Rv3298c/lpqC
Rv0811c/-	(cc=0.4211)	info on Rv0811c/-

Correlation of Rv3175/- with Rv0811c/-

Normalized LFCs for Rv3175/-:
(description and provenance of datasets)

	Rv3175/-	Rv0811c/-
Fe_supp_jason_reseq	-0.834	0.0
low_pH_jason_reseq	1.916	0.0
NO_jason_reseq	0.683	0.0
B6_jason_reseq	-0.048	0.0
MHCII_jason_reseq	0.534	0.0
Isoniazid02	0.623	0.0
Rifampicin4	-0.084	0.0
Ethambutol3	0.565	0.0
Meropenem3	1.167	0.0
Vancomycin16	0.236	0.0
Rv2680_day32	-0.462	0.0
H37Rv_KO_MarP	-0.322	0.371
hypoxia_3wks	0.076	0.0
hypoxia_6wks	-0.894	0.0
glycerol	-0.889	0.0
cholesterol	-0.652	0.0
AJ	-0.657	0.0
Bibs02	-0.012	0.0
Bibs02c	0.055	0.0
BL6	-0.05	0.0
BL6a	-0.161	0.0
BXD01	0.0	0.0
BXD010	-0.132	0.0
BXD011	-0.14	0.0
BXD03	-0.582	0.0
BXD04	-0.058	0.0
BXD05	-0.733	0.0
BXD06	0.225	0.0
BXD07	0.044	0.0
BXD08	-0.036	0.0
BXD09	-0.605	0.0
CAST	0.073	0.0
CCcont	-0.23	0.0
DS01	-0.192	0.0
DS02	0.057	0.0
DS04	0.159	0.0
DS0c	-0.402	0.0
GP01	-0.28	0.0
GP02	-1.456	0.0
GP0c	-0.241	0.0
NOD	-0.47	0.0
NZO	-0.897	0.0
PWK	-0.23	0.0
H37Rv_KO_CtpC	-0.011	0.0
H37Rv_KO_CtpD	0.185	0.127
H37Rv_KO_Rv1272	-1.097	0.598
H37Rv_KO_SugABC	-0.102	0.0
H37Rv_KO_MbtN	-0.136	0.0
Trans05	-0.097	0.876
macrophage_unactivated	0.253	0.0
IL1	-0.249	0.0
Rapamycin	0.061	0.0
Tcell	-0.528	0.0
GMCSF	0.528	0.0
IFNab	-0.094	0.0
IFNg	0.214	0.0
IFNg_GMCSF1	0.657	0.0
Rv1432_day32	0.609	0.0
Rv1565c_day32	0.316	0.0
secA2_input	0.322	0.157
delta_Rv3594	-0.835	-1.014
delta_Rv3717	-1.226	-1.165
delta_Rv3811	-1.692	-1.377
delta_Rv0954	-0.444	-1.196
PonA1	-0.422	-1.069
EccD1_KO	0.763	0.0
EspI_KO	0.827	0.0
PE35_KO	0.131	0.0
PPE68_KO	-0.304	0.0
glycerol2	0.077	0.0
lignocerate	0.144	0.0
oleate	0.578	0.0
phosphatidylcholine	0.165	0.0
acetate	0.281	0.0
glucAc	0.085	0.0
Rv0950ko	-0.305	0.0
Rv1096ko	0.866	2.045
Rv3684ko	1.133	2.22
delta_otsA_trehalose	-0.192	0.0