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 Rv1507c/-

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

	Rv2537c/aroD	Rv1507c/-
Fe_supp_jason_reseq	1.148	-0.712
low_pH_jason_reseq	-1.29	0.795
NO_jason_reseq	0.0	-0.709
B6_jason_reseq	-1.704	-0.5
MHCII_jason_reseq	-1.501	-0.815
Isoniazid02	-0.167	0.14
Rifampicin4	-0.311	0.734
Ethambutol3	-0.14	0.564
Meropenem3	-0.138	0.274
Vancomycin16	0.0	0.828
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-1.662	-0.157
hypoxia_3wks	0.459	0.79
hypoxia_6wks	0.464	0.637
glycerol	-0.385	-0.607
cholesterol	-0.276	-0.773
AJ	0.193	1.287
Bibs02	-0.348	0.348
Bibs02c	-0.399	-0.112
BL6	-0.238	-0.138
BL6a	0.595	1.329
BXD01	0.695	0.458
BXD010	0.0	0.244
BXD011	0.0	0.666
BXD03	0.856	1.115
BXD04	0.524	0.434
BXD05	-0.123	1.448
BXD06	0.566	1.131
BXD07	0.809	1.267
BXD08	1.127	0.778
BXD09	0.675	1.346
CAST	-0.439	-0.39
CCcont	-0.285	0.733
DS01	-0.45	0.346
DS02	-0.414	0.11
DS04	0.0	-0.104
DS0c	-0.413	0.317
GP01	-0.188	0.837
GP02	-0.159	-0.25
GP0c	-0.248	0.76
NOD	-0.428	0.329
NZO	-0.38	-0.22
PWK	-0.374	0.374
H37Rv_KO_CtpC	0.0	1.655
H37Rv_KO_CtpD	1.56	2.232
H37Rv_KO_Rv1272	-0.269	0.946
H37Rv_KO_SugABC	3.352	2.191
H37Rv_KO_MbtN	-0.094	0.799
Trans05	0.698	1.251
macrophage_unactivated	0.0	-0.092
IL1	0.0	0.4
Rapamycin	1.068	0.571
Tcell	0.209	0.179
GMCSF	-0.177	-0.077
IFNab	0.0	-0.088
IFNg	-0.369	0.147
IFNg_GMCSF1	0.0	-0.273
Rv1432_day32	-1.55	0.662
Rv1565c_day32	0.0	0.0
secA2_input	0.628	-1.021
delta_Rv3594	-1.071	0.34
delta_Rv3717	0.378	-0.405
delta_Rv3811	-0.564	-0.665
delta_Rv0954	-0.398	-0.34
PonA1	-1.154	0.054
EccD1_KO	1.23	0.171
EspI_KO	1.298	0.95
PE35_KO	0.971	0.152
PPE68_KO	0.486	0.0
glycerol2	-2.27	-0.38
lignocerate	-2.59	-0.213
oleate	-0.997	-0.315
phosphatidylcholine	-1.804	0.0
acetate	-2.003	-0.904
glucAc	-3.156	-0.229
Rv0950ko	0.247	0.513
Rv1096ko	0.0	-0.739
Rv3684ko	-0.593	-0.802
delta_otsA_trehalose	0.544	0.711