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 Rv2537c/aroD:

update plot	correlation	link to info on gene
Rv0526/-	(cc=0.5669)	info on Rv0526/-
Rv1414/-	(cc=0.5523)	info on Rv1414/-
Rv0078/-	(cc=0.5463)	info on Rv0078/-
Rv3398c/idsA1	(cc=0.5329)	info on Rv3398c/idsA1
Rv1946c/lppG	(cc=0.5055)	info on Rv1946c/lppG
Rv1506c/-	(cc=0.502)	info on Rv1506c/-
Rv1752/-	(cc=0.4959)	info on Rv1752/-
Rv1507c/-	(cc=0.4958)	info on Rv1507c/-
Rv0724/sppA	(cc=0.4953)	info on Rv0724/sppA
Rv2169c/-	(cc=0.4915)	info on Rv2169c/-

Correlation of Rv2537c/aroD with Rv0526/-

Normalized LFCs for Rv2537c/aroD:
(description and provenance of datasets)

	Rv2537c/aroD	Rv0526/-
Fe_supp_jason_reseq	1.148	0.0
low_pH_jason_reseq	-1.29	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	-1.704	0.0
MHCII_jason_reseq	-1.501	0.0
Isoniazid02	-0.167	0.0
Rifampicin4	-0.311	0.0
Ethambutol3	-0.14	0.0
Meropenem3	-0.138	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-1.662	0.0
hypoxia_3wks	0.459	0.0
hypoxia_6wks	0.464	0.0
glycerol	-0.385	0.0
cholesterol	-0.276	0.0
AJ	0.193	0.0
Bibs02	-0.348	0.0
Bibs02c	-0.399	0.0
BL6	-0.238	0.0
BL6a	0.595	0.0
BXD01	0.695	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.856	0.0
BXD04	0.524	0.0
BXD05	-0.123	0.0
BXD06	0.566	0.0
BXD07	0.809	0.0
BXD08	1.127	0.0
BXD09	0.675	0.0
CAST	-0.439	0.0
CCcont	-0.285	0.0
DS01	-0.45	0.0
DS02	-0.414	0.0
DS04	0.0	0.0
DS0c	-0.413	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	0.0	0.0
H37Rv_KO_CtpD	1.56	0.0
H37Rv_KO_Rv1272	-0.269	0.0
H37Rv_KO_SugABC	3.352	0.0
H37Rv_KO_MbtN	-0.094	0.0
Trans05	0.698	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	1.068	0.0
Tcell	0.209	0.0
GMCSF	-0.177	0.0
IFNab	0.0	0.0
IFNg	-0.369	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	-1.55	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.628	-0.412
delta_Rv3594	-1.071	0.0
delta_Rv3717	0.378	0.0
delta_Rv3811	-0.564	0.205
delta_Rv0954	-0.398	0.0
PonA1	-1.154	0.0
EccD1_KO	1.23	0.0
EspI_KO	1.298	0.0
PE35_KO	0.971	0.767
PPE68_KO	0.486	0.442
glycerol2	-2.27	-1.499
lignocerate	-2.59	-1.303
oleate	-0.997	-1.517
phosphatidylcholine	-1.804	-1.499
acetate	-2.003	-1.779
glucAc	-3.156	-1.106
Rv0950ko	0.247	0.416
Rv1096ko	0.0	0.0
Rv3684ko	-0.593	0.0
delta_otsA_trehalose	0.544	0.0