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 Rv2553c/-:

update plot	correlation	link to info on gene
Rv1836c/-	(cc=0.8859)	info on Rv1836c/-
Rv3102c/ftsE	(cc=0.8112)	info on Rv3102c/ftsE
Rv3101c/ftsX	(cc=0.7945)	info on Rv3101c/ftsX
Rv3671c/-	(cc=0.7418)	info on Rv3671c/-
Rv2837c/-	(cc=0.7308)	info on Rv2837c/-
Rv1565c/-	(cc=0.7196)	info on Rv1565c/-
Rv1821/secA2	(cc=0.6983)	info on Rv1821/secA2
Rv3593/lpqF	(cc=0.6952)	info on Rv3593/lpqF
Rv2190c/-	(cc=0.6903)	info on Rv2190c/-
Rv1080c/greA	(cc=0.6866)	info on Rv1080c/greA

Correlation of Rv2553c/- with Rv3101c/ftsX

Normalized LFCs for Rv2553c/-:
(description and provenance of datasets)

	Rv2553c/-	Rv3101c/ftsX
Fe_supp_jason_reseq	3.321	1.811
low_pH_jason_reseq	0.0	-0.811
NO_jason_reseq	0.0	-1.273
B6_jason_reseq	0.0	-0.538
MHCII_jason_reseq	0.0	-0.217
Isoniazid02	-0.965	-0.383
Rifampicin4	-1.795	-0.712
Ethambutol3	-0.958	-0.32
Meropenem3	0.0	-0.315
Vancomycin16	-2.457	-0.698
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-6.0	-5.633
hypoxia_3wks	-0.55	0.0
hypoxia_6wks	-0.288	0.0
glycerol	0.0	0.0
cholesterol	0.145	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.198	0.377
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.243	0.243
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.369	0.135
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	2.448	1.231
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.682	0.194
DS0c	0.0	0.0
GP01	0.0	0.099
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.162	0.901
H37Rv_KO_CtpD	0.445	0.348
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.42	0.608
H37Rv_KO_MbtN	0.987	1.349
Trans05	0.131	0.131
macrophage_unactivated	0.0	-0.571
IL1	-0.715	-1.148
Rapamycin	-0.74	-1.188
Tcell	-0.785	-0.912
GMCSF	-1.001	-0.739
IFNab	0.323	1.318
IFNg	-0.644	-1.034
IFNg_GMCSF1	-0.361	-0.88
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-1.825	0.584
delta_Rv3594	2.723	1.274
delta_Rv3717	3.292	1.141
delta_Rv3811	1.578	1.161
delta_Rv0954	-0.797	-1.541
PonA1	0.921	-1.262
EccD1_KO	-0.51	0.908
EspI_KO	-1.101	0.605
PE35_KO	-1.476	-0.595
PPE68_KO	-0.602	1.536
glycerol2	-0.68	0.0
lignocerate	-0.591	0.0
oleate	-0.688	0.0
phosphatidylcholine	-0.679	0.0
acetate	-0.806	0.0
glucAc	-0.501	0.0
Rv0950ko	-6.0	-6.0
Rv1096ko	-0.042	1.96
Rv3684ko	1.166	2.715
delta_otsA_trehalose	-0.917	-0.204