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 Rv1821/secA2

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

	Rv2553c/-	Rv1821/secA2
Fe_supp_jason_reseq	3.321	2.155
low_pH_jason_reseq	0.0	-0.151
NO_jason_reseq	0.0	-0.761
B6_jason_reseq	0.0	-0.322
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-0.965	0.105
Rifampicin4	-1.795	-2.039
Ethambutol3	-0.958	-1.437
Meropenem3	0.0	-1.288
Vancomycin16	-2.457	-3.136
Rv2680_day32	0.0	0.249
H37Rv_KO_MarP	-6.0	-4.953
hypoxia_3wks	-0.55	-1.571
hypoxia_6wks	-0.288	-0.823
glycerol	0.0	0.385
cholesterol	0.145	1.678
AJ	0.0	-0.815
Bibs02	0.0	-0.642
Bibs02c	0.0	-0.336
BL6	0.0	-0.077
BL6a	0.198	-0.185
BXD01	0.0	-0.256
BXD010	0.0	0.276
BXD011	0.243	0.21
BXD03	0.0	-0.863
BXD04	0.0	0.409
BXD05	0.369	-0.171
BXD06	0.0	0.04
BXD07	0.0	-0.375
BXD08	0.0	0.0
BXD09	0.0	-0.131
CAST	0.0	-1.118
CCcont	2.448	2.352
DS01	0.0	0.07
DS02	0.0	0.9
DS04	0.682	-0.059
DS0c	0.0	0.245
GP01	0.0	0.408
GP02	0.0	-0.861
GP0c	0.0	0.564
NOD	0.0	-0.441
NZO	0.0	-0.54
PWK	0.0	-0.06
H37Rv_KO_CtpC	0.162	-0.788
H37Rv_KO_CtpD	0.445	-0.295
H37Rv_KO_Rv1272	0.0	0.434
H37Rv_KO_SugABC	0.42	1.204
H37Rv_KO_MbtN	0.987	1.345
Trans05	0.131	0.459
macrophage_unactivated	0.0	0.922
IL1	-0.715	0.172
Rapamycin	-0.74	0.746
Tcell	-0.785	0.629
GMCSF	-1.001	-0.325
IFNab	0.323	0.81
IFNg	-0.644	0.716
IFNg_GMCSF1	-0.361	0.091
Rv1432_day32	0.0	-0.227
Rv1565c_day32	0.0	-1.03
secA2_input	-1.825	-3.397
delta_Rv3594	2.723	1.048
delta_Rv3717	3.292	1.74
delta_Rv3811	1.578	1.365
delta_Rv0954	-0.797	-0.009
PonA1	0.921	-0.74
EccD1_KO	-0.51	-0.082
EspI_KO	-1.101	-0.311
PE35_KO	-1.476	-0.295
PPE68_KO	-0.602	0.051
glycerol2	-0.68	-1.017
lignocerate	-0.591	-1.736
oleate	-0.688	-0.878
phosphatidylcholine	-0.679	-1.448
acetate	-0.806	-0.115
glucAc	-0.501	-0.536
Rv0950ko	-6.0	-1.119
Rv1096ko	-0.042	-0.787
Rv3684ko	1.166	-0.455
delta_otsA_trehalose	-0.917	-1.768