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 Rv1350/fabG2:

update plot	correlation	link to info on gene
Rv1574/-	(cc=0.4414)	info on Rv1574/-
Rv2461c/clpP1	(cc=0.4394)	info on Rv2461c/clpP1
Rv3765c/tcrX	(cc=0.4306)	info on Rv3765c/tcrX
Rv2044c/-	(cc=0.4184)	info on Rv2044c/-
Rv2168c/-	(cc=0.4022)	info on Rv2168c/-
Rv2454c/-	(cc=0.3999)	info on Rv2454c/-
Rv1924c/-	(cc=0.395)	info on Rv1924c/-
Rv2267c/-	(cc=0.3906)	info on Rv2267c/-
Rv0698/-	(cc=0.3867)	info on Rv0698/-
Rv2929/-	(cc=0.3739)	info on Rv2929/-

Correlation of Rv1350/fabG2 with Rv2454c/-

Normalized LFCs for Rv1350/fabG2:
(description and provenance of datasets)

	Rv1350/fabG2	Rv2454c/-
Fe_supp_jason_reseq	0.535	0.0
low_pH_jason_reseq	0.323	0.0
NO_jason_reseq	-1.168	0.0
B6_jason_reseq	0.297	0.0
MHCII_jason_reseq	-1.007	0.0
Isoniazid02	0.729	0.851
Rifampicin4	0.55	0.0
Ethambutol3	0.632	0.0
Meropenem3	0.506	0.0
Vancomycin16	0.6	0.0
Rv2680_day32	0.161	0.0
H37Rv_KO_MarP	-0.045	1.081
hypoxia_3wks	-0.092	0.0
hypoxia_6wks	0.731	0.0
glycerol	-0.976	0.0
cholesterol	-1.939	0.0
AJ	1.997	0.0
Bibs02	-2.099	0.0
Bibs02c	-0.041	0.0
BL6	0.116	0.0
BL6a	0.537	0.0
BXD01	0.931	0.0
BXD010	0.347	0.0
BXD011	0.723	0.0
BXD03	1.553	0.0
BXD04	0.847	0.0
BXD05	0.444	0.0
BXD06	0.421	0.0
BXD07	0.223	0.0
BXD08	0.771	0.0
BXD09	0.521	0.0
CAST	-0.284	0.0
CCcont	0.427	0.0
DS01	0.044	0.0
DS02	-0.414	0.0
DS04	1.102	0.0
DS0c	0.834	0.0
GP01	-0.477	0.099
GP02	1.057	0.0
GP0c	0.187	0.0
NOD	0.74	0.0
NZO	0.0	0.0
PWK	1.093	0.0
H37Rv_KO_CtpC	-0.467	0.0
H37Rv_KO_CtpD	1.335	0.445
H37Rv_KO_Rv1272	0.027	0.0
H37Rv_KO_SugABC	-0.285	0.0
H37Rv_KO_MbtN	-1.018	0.0
Trans05	-0.344	0.0
macrophage_unactivated	0.114	0.0
IL1	0.789	0.0
Rapamycin	-0.055	0.0
Tcell	-0.371	0.0
GMCSF	-0.459	0.0
IFNab	0.109	0.0
IFNg	1.096	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	3.053	0.0
Rv1565c_day32	-1.772	0.0
secA2_input	-3.283	-2.955
delta_Rv3594	-0.583	0.0
delta_Rv3717	-0.479	0.0
delta_Rv3811	-0.336	0.0
delta_Rv0954	-0.492	0.178
PonA1	-0.826	0.159
EccD1_KO	0.158	0.0
EspI_KO	0.462	0.0
PE35_KO	0.837	0.767
PPE68_KO	0.0	0.442
glycerol2	0.398	0.0
lignocerate	1.433	0.0
oleate	-0.445	0.0
phosphatidylcholine	1.014	0.0
acetate	1.327	0.229
glucAc	1.202	0.143
Rv0950ko	-0.498	-0.38
Rv1096ko	-0.121	-0.793
Rv3684ko	0.187	-0.413
delta_otsA_trehalose	2.128	-0.027