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 Rv2359/zur:

update plot	correlation	link to info on gene
Rv1685c/-	(cc=0.7236)	info on Rv1685c/-
Rv0467/icl1	(cc=0.6834)	info on Rv0467/icl1
Rv2844/-	(cc=0.678)	info on Rv2844/-
Rv2907c/rimM	(cc=0.6534)	info on Rv2907c/rimM
Rv2470/glbO	(cc=0.6287)	info on Rv2470/glbO
Rv3603c/-	(cc=0.6131)	info on Rv3603c/-
Rv0411c/glnH	(cc=0.6118)	info on Rv0411c/glnH
Rv2115c/mpa	(cc=0.6054)	info on Rv2115c/mpa
Rv3032/-	(cc=0.5922)	info on Rv3032/-
Rv2980/-	(cc=0.5917)	info on Rv2980/-

Correlation of Rv2359/zur with Rv3032/-

Normalized LFCs for Rv2359/zur:
(description and provenance of datasets)

	Rv2359/zur	Rv3032/-
Fe_supp_jason_reseq	0.598	0.0
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	-0.146	0.0
Rifampicin4	-1.21	0.0
Ethambutol3	1.156	0.0
Meropenem3	0.217	0.0
Vancomycin16	-1.552	0.0
Rv2680_day32	0.0	0.249
H37Rv_KO_MarP	-0.272	-0.151
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	-0.385	0.0
cholesterol	0.435	0.0
AJ	-0.442	0.0
Bibs02	-0.348	0.0
Bibs02c	-0.191	0.0
BL6	-0.238	0.0
BL6a	-0.377	0.0
BXD01	-0.248	0.0
BXD010	0.107	0.0
BXD011	-0.243	0.0
BXD03	-0.258	0.0
BXD04	0.103	0.0
BXD05	-0.256	0.0
BXD06	-0.254	0.0
BXD07	-0.264	0.0
BXD08	-0.121	0.0
BXD09	-0.268	0.0
CAST	0.0	0.0
CCcont	0.797	0.285
DS01	-0.216	0.0
DS02	-0.414	0.0
DS04	-0.177	0.0
DS0c	-0.198	0.0
GP01	-0.188	0.0
GP02	-0.159	0.0
GP0c	-0.248	0.0
NOD	-0.428	0.0
NZO	-0.38	0.0
PWK	-0.374	0.0
H37Rv_KO_CtpC	-0.309	0.0
H37Rv_KO_CtpD	0.106	0.0
H37Rv_KO_Rv1272	0.227	0.0
H37Rv_KO_SugABC	0.159	0.0
H37Rv_KO_MbtN	0.0	0.0
Trans05	0.476	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.766	0.0
secA2_input	0.992	0.806
delta_Rv3594	-0.369	0.402
delta_Rv3717	-0.303	0.331
delta_Rv3811	-0.358	0.0
delta_Rv0954	2.396	0.49
PonA1	0.876	0.0
EccD1_KO	1.003	0.378
EspI_KO	1.748	3.18
PE35_KO	2.917	2.739
PPE68_KO	3.59	1.872
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.0	0.0
Rv0950ko	-1.143	0.0
Rv1096ko	-0.929	0.347
Rv3684ko	-1.739	1.055
delta_otsA_trehalose	-0.218	1.151