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 Rv1533/-:

update plot	correlation	link to info on gene
Rv3887c/eccD2	(cc=0.5504)	info on Rv3887c/eccD2
Rv3673c/-	(cc=0.5449)	info on Rv3673c/-
Rv0642c/mmaA4	(cc=0.5411)	info on Rv0642c/mmaA4
Rv3008/-	(cc=0.5388)	info on Rv3008/-
Rv0059/-	(cc=0.5306)	info on Rv0059/-
Rv0701/rplC	(cc=0.5207)	info on Rv0701/rplC
Rv3528c/-	(cc=0.5151)	info on Rv3528c/-
Rv3796/-	(cc=0.5085)	info on Rv3796/-
Rv0588/yrbE2B	(cc=0.4979)	info on Rv0588/yrbE2B
Rv2678c/hemE	(cc=0.4949)	info on Rv2678c/hemE

Correlation of Rv1533/- with Rv0701/rplC

Normalized LFCs for Rv1533/-:
(description and provenance of datasets)

	Rv1533/-	Rv0701/rplC
Fe_supp_jason_reseq	0.369	0.0
low_pH_jason_reseq	-0.532	0.0
NO_jason_reseq	-0.683	0.0
B6_jason_reseq	0.119	0.0
MHCII_jason_reseq	0.458	0.0
Isoniazid02	-0.212	0.0
Rifampicin4	-0.233	0.0
Ethambutol3	0.114	0.0
Meropenem3	-0.612	0.0
Vancomycin16	-0.512	0.0
Rv2680_day32	0.272	0.0
H37Rv_KO_MarP	0.068	0.0
hypoxia_3wks	0.63	0.0
hypoxia_6wks	1.253	0.0
glycerol	0.607	0.0
cholesterol	0.106	0.0
AJ	0.17	0.0
Bibs02	0.054	0.0
Bibs02c	0.605	0.0
BL6	0.797	0.0
BL6a	1.093	0.0
BXD01	0.944	0.0
BXD010	-0.21	0.0
BXD011	1.169	0.0
BXD03	0.647	0.0
BXD04	1.188	0.0
BXD05	1.156	0.0
BXD06	1.322	0.0
BXD07	0.537	0.0
BXD08	0.792	0.0
BXD09	0.658	0.0
CAST	-0.377	0.0
CCcont	1.47	0.0
DS01	0.303	0.0
DS02	0.249	0.0
DS04	0.0	0.0
DS0c	0.952	0.0
GP01	1.233	0.0
GP02	0.51	0.0
GP0c	0.218	0.13
NOD	0.067	0.0
NZO	0.577	0.0
PWK	0.277	0.0
H37Rv_KO_CtpC	0.293	0.0
H37Rv_KO_CtpD	1.396	0.0
H37Rv_KO_Rv1272	0.674	0.0
H37Rv_KO_SugABC	1.739	0.0
H37Rv_KO_MbtN	1.062	0.0
Trans05	1.248	0.0
macrophage_unactivated	0.657	0.0
IL1	0.252	0.0
Rapamycin	0.295	0.0
Tcell	0.782	0.0
GMCSF	0.491	0.0
IFNab	-0.076	0.0
IFNg	0.131	0.0
IFNg_GMCSF1	-0.16	0.0
Rv1432_day32	-0.674	0.0
Rv1565c_day32	0.174	0.0
secA2_input	1.207	1.675
delta_Rv3594	0.128	0.0
delta_Rv3717	0.763	0.0
delta_Rv3811	0.062	0.0
delta_Rv0954	0.671	0.0
PonA1	1.589	0.0
EccD1_KO	-1.125	-1.47
EspI_KO	-1.705	-1.668
PE35_KO	-0.948	-1.706
PPE68_KO	-0.989	-1.872
glycerol2	0.31	0.0
lignocerate	0.395	0.0
oleate	0.143	0.0
phosphatidylcholine	0.637	0.0
acetate	0.284	0.0
glucAc	0.212	0.0
Rv0950ko	0.103	0.0
Rv1096ko	0.305	0.0
Rv3684ko	0.832	0.0
delta_otsA_trehalose	-0.898	0.254