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 Rv1508A/-:

update plot	correlation	link to info on gene
Rv2998/-	(cc=0.5325)	info on Rv2998/-
Rv1984c/cfp21	(cc=0.5097)	info on Rv1984c/cfp21
Rv1903/-	(cc=0.5065)	info on Rv1903/-
Rv0691c/-	(cc=0.4931)	info on Rv0691c/-
Rv2977c/thiL	(cc=0.4739)	info on Rv2977c/thiL
Rv1215c/-	(cc=0.4668)	info on Rv1215c/-
Rv2819c/-	(cc=0.4578)	info on Rv2819c/-
Rv2492/-	(cc=0.4572)	info on Rv2492/-
Rv1583c/-	(cc=0.4443)	info on Rv1583c/-
Rv2929/-	(cc=0.4418)	info on Rv2929/-

Correlation of Rv1508A/- with Rv1903/-

Normalized LFCs for Rv1508A/-:
(description and provenance of datasets)

	Rv1508A/-	Rv1903/-
Fe_supp_jason_reseq	0.608	-0.494
low_pH_jason_reseq	0.279	0.201
NO_jason_reseq	0.116	0.326
B6_jason_reseq	-0.172	0.009
MHCII_jason_reseq	-0.921	-0.026
Isoniazid02	-0.662	-0.428
Rifampicin4	-0.36	0.715
Ethambutol3	1.415	0.736
Meropenem3	-0.252	0.062
Vancomycin16	-0.48	-0.377
Rv2680_day32	-0.352	-0.724
H37Rv_KO_MarP	0.509	0.007
hypoxia_3wks	-0.921	0.108
hypoxia_6wks	0.489	0.42
glycerol	-0.974	0.853
cholesterol	-0.19	0.798
AJ	0.36	0.272
Bibs02	-1.407	0.685
Bibs02c	0.243	0.72
BL6	0.497	0.643
BL6a	-0.07	0.994
BXD01	0.131	0.498
BXD010	0.31	0.819
BXD011	-0.3	0.688
BXD03	0.418	0.833
BXD04	0.011	0.019
BXD05	-0.331	1.199
BXD06	0.046	0.051
BXD07	-0.223	0.645
BXD08	-0.122	0.246
BXD09	0.185	1.085
CAST	0.475	1.151
CCcont	-0.21	0.138
DS01	0.0	-0.334
DS02	-0.584	-0.087
DS04	-0.178	-0.446
DS0c	-0.097	0.478
GP01	0.68	0.354
GP02	0.084	-0.653
GP0c	0.182	0.286
NOD	-0.02	0.026
NZO	-0.751	-0.692
PWK	-0.217	0.456
H37Rv_KO_CtpC	0.201	1.599
H37Rv_KO_CtpD	1.846	2.544
H37Rv_KO_Rv1272	1.664	1.104
H37Rv_KO_SugABC	-1.846	-2.204
H37Rv_KO_MbtN	-0.266	0.75
Trans05	0.788	1.641
macrophage_unactivated	0.385	-0.679
IL1	-0.742	0.872
Rapamycin	0.117	0.457
Tcell	0.283	0.531
GMCSF	-0.069	1.249
IFNab	-0.363	-0.227
IFNg	-0.548	0.668
IFNg_GMCSF1	-0.204	-0.339
Rv1432_day32	0.811	0.87
Rv1565c_day32	-0.55	0.504
secA2_input	-0.612	-1.28
delta_Rv3594	-1.848	0.069
delta_Rv3717	-1.063	-0.255
delta_Rv3811	-0.842	0.529
delta_Rv0954	-1.008	0.121
PonA1	-0.374	0.092
EccD1_KO	0.118	0.579
EspI_KO	-0.519	0.707
PE35_KO	1.038	-0.131
PPE68_KO	1.107	0.659
glycerol2	-0.113	0.448
lignocerate	0.138	0.756
oleate	-0.155	0.069
phosphatidylcholine	0.322	0.448
acetate	0.086	0.687
glucAc	0.166	0.922
Rv0950ko	-0.163	0.214
Rv1096ko	-1.019	-1.227
Rv3684ko	-0.684	-0.026
delta_otsA_trehalose	-2.369	-0.832