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 Rv0724/sppA

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

	Rv2537c/aroD	Rv0724/sppA
Fe_supp_jason_reseq	1.148	0.762
low_pH_jason_reseq	-1.29	-0.979
NO_jason_reseq	0.0	0.0
B6_jason_reseq	-1.704	0.041
MHCII_jason_reseq	-1.501	0.121
Isoniazid02	-0.167	0.172
Rifampicin4	-0.311	0.184
Ethambutol3	-0.14	0.212
Meropenem3	-0.138	0.273
Vancomycin16	0.0	0.04
Rv2680_day32	0.0	0.357
H37Rv_KO_MarP	-1.662	-1.83
hypoxia_3wks	0.459	0.949
hypoxia_6wks	0.464	0.121
glycerol	-0.385	-0.102
cholesterol	-0.276	0.378
AJ	0.193	-0.141
Bibs02	-0.348	0.346
Bibs02c	-0.399	0.0
BL6	-0.238	0.246
BL6a	0.595	0.39
BXD01	0.695	0.257
BXD010	0.0	0.731
BXD011	0.0	0.37
BXD03	0.856	0.472
BXD04	0.524	0.483
BXD05	-0.123	-0.068
BXD06	0.566	0.263
BXD07	0.809	0.649
BXD08	1.127	0.689
BXD09	0.675	0.43
CAST	-0.439	-0.707
CCcont	-0.285	0.826
DS01	-0.45	0.953
DS02	-0.414	1.314
DS04	0.0	1.49
DS0c	-0.413	1.031
GP01	-0.188	0.137
GP02	-0.159	0.658
GP0c	-0.248	0.329
NOD	-0.428	-0.843
NZO	-0.38	0.077
PWK	-0.374	-0.335
H37Rv_KO_CtpC	0.0	-0.048
H37Rv_KO_CtpD	1.56	0.406
H37Rv_KO_Rv1272	-0.269	0.389
H37Rv_KO_SugABC	3.352	1.332
H37Rv_KO_MbtN	-0.094	-0.02
Trans05	0.698	0.637
macrophage_unactivated	0.0	0.505
IL1	0.0	0.131
Rapamycin	1.068	0.672
Tcell	0.209	0.072
GMCSF	-0.177	0.605
IFNab	0.0	0.605
IFNg	-0.369	0.909
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	-1.55	-0.164
Rv1565c_day32	0.0	-0.649
secA2_input	0.628	0.31
delta_Rv3594	-1.071	0.18
delta_Rv3717	0.378	-0.327
delta_Rv3811	-0.564	-0.024
delta_Rv0954	-0.398	-0.454
PonA1	-1.154	-0.597
EccD1_KO	1.23	-0.095
EspI_KO	1.298	0.533
PE35_KO	0.971	-0.315
PPE68_KO	0.486	-0.512
glycerol2	-2.27	-0.768
lignocerate	-2.59	-0.653
oleate	-0.997	0.092
phosphatidylcholine	-1.804	-0.44
acetate	-2.003	-0.113
glucAc	-3.156	-0.357
Rv0950ko	0.247	-0.118
Rv1096ko	0.0	-0.694
Rv3684ko	-0.593	-0.907
delta_otsA_trehalose	0.544	1.166