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 Rv2678c/hemE

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

	Rv1533/-	Rv2678c/hemE
Fe_supp_jason_reseq	0.369	0.415
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	0.168
Meropenem3	-0.612	0.0
Vancomycin16	-0.512	0.0
Rv2680_day32	0.272	0.0
H37Rv_KO_MarP	0.068	-0.535
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	0.0
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	0.196
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	-0.216
delta_Rv3594	0.128	0.0
delta_Rv3717	0.763	0.174
delta_Rv3811	0.062	0.564
delta_Rv0954	0.671	0.0
PonA1	1.589	0.159
EccD1_KO	-1.125	-1.654
EspI_KO	-1.705	-1.435
PE35_KO	-0.948	-1.467
PPE68_KO	-0.989	-1.609
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	0.38
Rv3684ko	0.832	-0.452
delta_otsA_trehalose	-0.898	0.0