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 Rv2782c/pepR:

update plot	correlation	link to info on gene
Rv2684/arsA	(cc=0.5982)	info on Rv2684/arsA
Rv2335/cysE	(cc=0.5932)	info on Rv2335/cysE
Rv2901c/-	(cc=0.534)	info on Rv2901c/-
Rv2683/-	(cc=0.5318)	info on Rv2683/-
Rv0554/bpoC	(cc=0.4911)	info on Rv0554/bpoC
Rv1286/cysN	(cc=0.4794)	info on Rv1286/cysN
Rv2334/cysK1	(cc=0.4745)	info on Rv2334/cysK1
Rv1100/-	(cc=0.4662)	info on Rv1100/-
Rv2795c/-	(cc=0.4492)	info on Rv2795c/-
Rv2581c/-	(cc=0.4484)	info on Rv2581c/-

Correlation of Rv2782c/pepR with Rv2581c/-

Normalized LFCs for Rv2782c/pepR:
(description and provenance of datasets)

	Rv2782c/pepR	Rv2581c/-
Fe_supp_jason_reseq	1.5	1.796
low_pH_jason_reseq	0.39	1.282
NO_jason_reseq	-0.549	0.0
B6_jason_reseq	0.514	0.153
MHCII_jason_reseq	0.337	0.0
Isoniazid02	0.348	0.0
Rifampicin4	1.584	0.0
Ethambutol3	-0.035	0.0
Meropenem3	2.27	0.0
Vancomycin16	0.883	0.0
Rv2680_day32	0.997	0.0
H37Rv_KO_MarP	-1.089	-0.195
hypoxia_3wks	-2.408	-1.511
hypoxia_6wks	-1.693	-0.24
glycerol	-0.546	0.0
cholesterol	-0.972	0.0
AJ	-0.442	0.0
Bibs02	-0.629	0.0
Bibs02c	0.671	0.0
BL6	0.865	0.0
BL6a	0.304	0.696
BXD01	0.364	0.0
BXD010	0.454	0.0
BXD011	-0.161	0.0
BXD03	0.722	0.0
BXD04	-0.07	0.236
BXD05	0.503	0.256
BXD06	0.316	0.0
BXD07	0.49	0.0
BXD08	0.128	0.133
BXD09	0.248	0.386
CAST	0.062	0.0
CCcont	0.428	1.43
DS01	0.147	0.0
DS02	0.854	0.0
DS04	-0.594	0.0
DS0c	-1.455	0.0
GP01	-1.525	0.0
GP02	-0.544	0.0
GP0c	-1.493	0.0
NOD	-0.332	0.0
NZO	0.053	0.0
PWK	0.205	0.0
H37Rv_KO_CtpC	-0.172	0.0
H37Rv_KO_CtpD	0.648	0.537
H37Rv_KO_Rv1272	-0.805	0.0
H37Rv_KO_SugABC	-0.505	0.099
H37Rv_KO_MbtN	-1.475	0.0
Trans05	-0.81	0.0
macrophage_unactivated	-0.966	0.436
IL1	0.128	0.0
Rapamycin	-0.39	0.0
Tcell	0.072	0.45
GMCSF	-1.146	0.364
IFNab	-2.373	0.417
IFNg	-1.622	0.0
IFNg_GMCSF1	-1.804	0.0
Rv1432_day32	-0.15	0.0
Rv1565c_day32	-0.425	-0.218
secA2_input	-1.34	0.157
delta_Rv3594	-1.869	-1.649
delta_Rv3717	-3.01	-2.25
delta_Rv3811	-2.162	-1.725
delta_Rv0954	-0.376	-2.31
PonA1	0.279	1.526
EccD1_KO	0.056	2.654
EspI_KO	-0.87	0.485
PE35_KO	1.135	0.496
PPE68_KO	0.368	1.677
glycerol2	-0.566	-1.401
lignocerate	-1.579	-1.218
oleate	-3.088	-1.418
phosphatidylcholine	-0.695	-1.401
acetate	0.081	-0.856
glucAc	0.18	-0.532
Rv0950ko	-0.757	1.462
Rv1096ko	-0.437	2.045
Rv3684ko	0.478	1.916
delta_otsA_trehalose	0.179	0.0