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 Rv3102c/ftsE

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

	Rv2553c/-	Rv3102c/ftsE
Fe_supp_jason_reseq	3.321	1.664
low_pH_jason_reseq	0.0	-0.192
NO_jason_reseq	0.0	-0.995
B6_jason_reseq	0.0	-0.421
MHCII_jason_reseq	0.0	-0.37
Isoniazid02	-0.965	-0.706
Rifampicin4	-1.795	-1.313
Ethambutol3	-0.958	-0.423
Meropenem3	0.0	-0.581
Vancomycin16	-2.457	-1.287
Rv2680_day32	0.0	-0.249
H37Rv_KO_MarP	-6.0	-5.122
hypoxia_3wks	-0.55	-0.55
hypoxia_6wks	-0.288	-0.288
glycerol	0.0	0.0
cholesterol	0.145	0.145
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	0.127
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.369	0.256
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	0.733
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.682	0.822
DS0c	0.0	0.0
GP01	0.0	0.0
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	0.688
H37Rv_KO_CtpD	0.445	0.537
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.42	0.55
H37Rv_KO_MbtN	0.987	1.109
Trans05	0.131	0.0
macrophage_unactivated	0.0	-1.411
IL1	-0.715	0.0
Rapamycin	-0.74	-0.632
Tcell	-0.785	-1.906
GMCSF	-1.001	-1.18
IFNab	0.323	1.466
IFNg	-0.644	-1.195
IFNg_GMCSF1	-0.361	-1.012
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-1.825	0.814
delta_Rv3594	2.723	3.159
delta_Rv3717	3.292	1.995
delta_Rv3811	1.578	1.096
delta_Rv0954	-0.797	-0.862
PonA1	0.921	-0.871
EccD1_KO	-0.51	1.059
EspI_KO	-1.101	1.56
PE35_KO	-1.476	-0.703
PPE68_KO	-0.602	-0.275
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	-1.433
Rv3684ko	1.166	-0.213
delta_otsA_trehalose	-0.917	-2.671