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 Rv2832c/ugpC:

update plot	correlation	link to info on gene
Rv2801c/mazF9	(cc=0.4461)	info on Rv2801c/mazF9
Rv2131c/cysQ	(cc=0.4442)	info on Rv2131c/cysQ
Rv0998/-	(cc=0.4407)	info on Rv0998/-
Rv0732/secY	(cc=0.4366)	info on Rv0732/secY
Rv2164c/-	(cc=0.4356)	info on Rv2164c/-
Rv1253/deaD	(cc=0.4272)	info on Rv1253/deaD
Rv1365c/rsfA	(cc=0.4263)	info on Rv1365c/rsfA
Rv2446c/-	(cc=0.4252)	info on Rv2446c/-
Rv1745c/idi	(cc=0.4191)	info on Rv1745c/idi
Rv1421/-	(cc=0.4108)	info on Rv1421/-

Correlation of Rv2832c/ugpC with Rv2164c/-

Normalized LFCs for Rv2832c/ugpC:
(description and provenance of datasets)

	Rv2832c/ugpC	Rv2164c/-
Fe_supp_jason_reseq	-1.304	0.0
low_pH_jason_reseq	0.999	0.0
NO_jason_reseq	0.625	0.0
B6_jason_reseq	-0.474	0.0
MHCII_jason_reseq	0.63	0.0
Isoniazid02	0.124	0.0
Rifampicin4	-0.504	0.0
Ethambutol3	-0.168	0.0
Meropenem3	-0.053	0.0
Vancomycin16	0.114	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.207	0.0
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.455	0.0
glycerol	1.102	0.0
cholesterol	-0.703	0.0
AJ	0.96	0.0
Bibs02	0.481	0.0
Bibs02c	1.32	0.0
BL6	1.555	0.0
BL6a	0.61	0.0
BXD01	0.884	0.0
BXD010	0.394	0.0
BXD011	0.626	0.0
BXD03	0.0	0.0
BXD04	0.037	0.0
BXD05	1.215	0.0
BXD06	0.187	0.0
BXD07	0.851	0.0
BXD08	0.467	0.0
BXD09	1.37	0.0
CAST	-1.011	0.0
CCcont	0.393	0.0
DS01	2.132	0.0
DS02	0.246	0.0
DS04	1.726	0.0
DS0c	0.358	0.0
GP01	-0.433	0.0
GP02	1.414	0.0
GP0c	0.457	0.0
NOD	-1.199	0.0
NZO	0.116	0.0
PWK	0.604	0.0
H37Rv_KO_CtpC	0.672	0.0
H37Rv_KO_CtpD	-1.213	0.0
H37Rv_KO_Rv1272	-1.065	0.0
H37Rv_KO_SugABC	-1.108	0.0
H37Rv_KO_MbtN	-0.406	0.0
Trans05	-1.461	0.0
macrophage_unactivated	0.237	0.0
IL1	-0.842	0.0
Rapamycin	0.157	0.0
Tcell	-0.085	0.0
GMCSF	0.626	0.0
IFNab	0.302	0.0
IFNg	1.074	0.0
IFNg_GMCSF1	0.314	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	2.786	0.0
secA2_input	1.005	0.0
delta_Rv3594	2.022	1.416
delta_Rv3717	0.901	1.803
delta_Rv3811	0.97	1.487
delta_Rv0954	0.665	0.0
PonA1	1.663	1.313
EccD1_KO	-1.01	-0.22
EspI_KO	-3.314	-2.852
PE35_KO	-0.184	-2.917
PPE68_KO	-1.232	-2.796
glycerol2	-1.488	0.0
lignocerate	-1.765	0.0
oleate	-0.522	0.0
phosphatidylcholine	-0.877	0.0
acetate	-1.376	0.0
glucAc	-1.442	0.0
Rv0950ko	-0.736	-0.416
Rv1096ko	0.0	-0.416
Rv3684ko	-1.464	-0.452
delta_otsA_trehalose	0.181	0.0