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 Rv1837c/glcB:

update plot	correlation	link to info on gene
Rv2842c/-	(cc=0.4684)	info on Rv2842c/-
Rv3264c/manB	(cc=0.4086)	info on Rv3264c/manB
Rv3132c/devS	(cc=0.4066)	info on Rv3132c/devS
Rv0545c/pitA	(cc=0.385)	info on Rv0545c/pitA
Rv1711/-	(cc=0.3826)	info on Rv1711/-
Rv3177/-	(cc=0.3632)	info on Rv3177/-
Rv3919c/gid	(cc=0.3547)	info on Rv3919c/gid
Rv2416c/eis	(cc=0.3459)	info on Rv2416c/eis
Rv3032/-	(cc=0.3446)	info on Rv3032/-
Rv0546c/-	(cc=0.3428)	info on Rv0546c/-

Correlation of Rv1837c/glcB with Rv3177/-

Normalized LFCs for Rv1837c/glcB:
(description and provenance of datasets)

	Rv1837c/glcB	Rv3177/-
Fe_supp_jason_reseq	0.0	-0.515
low_pH_jason_reseq	0.0	0.167
NO_jason_reseq	1.32	1.286
B6_jason_reseq	-0.292	-1.817
MHCII_jason_reseq	-0.257	0.515
Isoniazid02	0.0	0.809
Rifampicin4	0.374	0.764
Ethambutol3	0.0	0.314
Meropenem3	0.0	-0.035
Vancomycin16	0.0	0.493
Rv2680_day32	0.0	-2.761
H37Rv_KO_MarP	0.34	0.556
hypoxia_3wks	0.427	0.104
hypoxia_6wks	0.0	-2.32
glycerol	0.992	1.334
cholesterol	0.0	-0.191
AJ	0.0	0.857
Bibs02	0.0	-1.566
Bibs02c	0.0	0.746
BL6	0.238	0.147
BL6a	0.377	1.521
BXD01	0.358	-0.047
BXD010	0.629	1.194
BXD011	0.127	0.438
BXD03	0.135	0.221
BXD04	0.0	-0.47
BXD05	0.135	0.28
BXD06	0.133	-0.474
BXD07	0.138	0.821
BXD08	0.0	-0.123
BXD09	0.268	1.31
CAST	0.0	0.0
CCcont	0.633	0.943
DS01	0.236	0.351
DS02	0.0	0.288
DS04	0.0	-0.55
DS0c	0.0	0.184
GP01	0.0	1.228
GP02	0.0	2.04
GP0c	0.0	1.031
NOD	0.0	-1.668
NZO	0.0	0.069
PWK	0.0	-1.13
H37Rv_KO_CtpC	0.162	0.112
H37Rv_KO_CtpD	0.0	0.168
H37Rv_KO_Rv1272	0.0	-0.812
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.572	1.183
Trans05	0.0	1.611
macrophage_unactivated	-0.436	-0.802
IL1	-0.409	0.436
Rapamycin	-0.424	0.0
Tcell	0.0	0.101
GMCSF	-0.364	-0.481
IFNab	0.729	0.184
IFNg	-0.369	-0.882
IFNg_GMCSF1	-0.434	-0.097
Rv1432_day32	-0.343	-1.387
Rv1565c_day32	0.0	0.853
secA2_input	0.18	1.648
delta_Rv3594	1.127	0.142
delta_Rv3717	-0.331	0.75
delta_Rv3811	0.87	0.721
delta_Rv0954	-0.163	0.505
PonA1	-0.304	1.136
EccD1_KO	0.414	0.375
EspI_KO	1.791	1.064
PE35_KO	0.368	-0.07
PPE68_KO	0.0	0.701
glycerol2	0.14	1.321
lignocerate	-0.13	2.453
oleate	-0.688	-1.759
phosphatidylcholine	0.0	2.001
acetate	0.973	2.869
glucAc	0.605	2.293
Rv0950ko	0.38	-0.838
Rv1096ko	1.348	0.054
Rv3684ko	0.413	1.005
delta_otsA_trehalose	0.0	-2.182