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 Rv1552/frdA:

update plot	correlation	link to info on gene
Rv1490/-	(cc=0.5088)	info on Rv1490/-
Rv1800/PPE28	(cc=0.5017)	info on Rv1800/PPE28
Rv2435c/-	(cc=0.4911)	info on Rv2435c/-
Rv1962A/vapB35	(cc=0.487)	info on Rv1962A/vapB35
Rv1582c/-	(cc=0.4687)	info on Rv1582c/-
Rv1324/-	(cc=0.4686)	info on Rv1324/-
Rv3588c/canB	(cc=0.4661)	info on Rv3588c/canB
Rv3902c/-	(cc=0.4652)	info on Rv3902c/-
Rv3410c/guaB3	(cc=0.4641)	info on Rv3410c/guaB3
Rv1944c/-	(cc=0.4636)	info on Rv1944c/-

Correlation of Rv1552/frdA with Rv3588c/canB

Normalized LFCs for Rv1552/frdA:
(description and provenance of datasets)

	Rv1552/frdA	Rv3588c/canB
Fe_supp_jason_reseq	-0.283	0.0
low_pH_jason_reseq	0.679	0.0
NO_jason_reseq	0.097	0.0
B6_jason_reseq	-0.246	0.0
MHCII_jason_reseq	-0.375	0.0
Isoniazid02	1.394	0.0
Rifampicin4	0.057	0.0
Ethambutol3	1.083	0.0
Meropenem3	-0.103	0.0
Vancomycin16	0.162	0.0
Rv2680_day32	0.071	0.0
H37Rv_KO_MarP	0.275	0.0
hypoxia_3wks	0.638	0.0
hypoxia_6wks	0.255	0.0
glycerol	0.0	0.0
cholesterol	0.219	0.0
AJ	1.106	0.0
Bibs02	0.474	0.0
Bibs02c	0.196	0.0
BL6	0.225	0.0
BL6a	0.244	0.0
BXD01	0.252	0.0
BXD010	0.379	0.0
BXD011	0.229	0.0
BXD03	-0.349	0.135
BXD04	-0.345	0.0
BXD05	0.106	0.0
BXD06	-0.067	0.0
BXD07	0.526	0.0
BXD08	0.239	0.0
BXD09	0.252	0.0
CAST	0.0	0.0
CCcont	0.048	0.0
DS01	-0.2	0.0
DS02	-0.852	0.0
DS04	-0.032	0.0
DS0c	-0.427	0.0
GP01	0.577	0.0
GP02	0.216	0.0
GP0c	0.369	0.13
NOD	1.185	0.0
NZO	0.889	0.0
PWK	0.405	0.0
H37Rv_KO_CtpC	0.824	0.0
H37Rv_KO_CtpD	1.188	0.127
H37Rv_KO_Rv1272	1.044	0.0
H37Rv_KO_SugABC	0.293	0.0
H37Rv_KO_MbtN	0.491	0.0
Trans05	0.701	0.0
macrophage_unactivated	0.268	0.0
IL1	0.605	0.0
Rapamycin	0.196	0.0
Tcell	0.538	0.0
GMCSF	-0.058	0.0
IFNab	-0.417	0.0
IFNg	-0.305	0.0
IFNg_GMCSF1	0.267	0.0
Rv1432_day32	0.121	0.0
Rv1565c_day32	0.065	0.0
secA2_input	-0.269	0.0
delta_Rv3594	0.358	0.0
delta_Rv3717	-0.138	0.0
delta_Rv3811	0.402	0.0
delta_Rv0954	0.326	0.178
PonA1	-0.353	0.0
EccD1_KO	0.122	0.0
EspI_KO	0.787	0.0
PE35_KO	0.939	1.105
PPE68_KO	1.078	0.442
glycerol2	0.0	0.0
lignocerate	-0.069	0.0
oleate	0.2	0.0
phosphatidylcholine	0.126	0.0
acetate	0.03	0.0
glucAc	0.128	0.392
Rv0950ko	-0.326	-1.462
Rv1096ko	-0.73	-1.463
Rv3684ko	-1.343	-1.588
delta_otsA_trehalose	0.031	0.329