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 Rv3621c/PPE65:

update plot	correlation	link to info on gene
Rv1894c/-	(cc=0.4567)	info on Rv1894c/-
Rv3055/-	(cc=0.423)	info on Rv3055/-
Rv0577/TB27.3	(cc=0.4204)	info on Rv0577/TB27.3
Rv2079/-	(cc=0.4061)	info on Rv2079/-
Rv2025c/-	(cc=0.4017)	info on Rv2025c/-
Rv0962c/lprP	(cc=0.387)	info on Rv0962c/lprP
Rv1053c/-	(cc=0.3814)	info on Rv1053c/-
Rv1760/-	(cc=0.381)	info on Rv1760/-
Rv3595c/PE_PGRS59	(cc=0.3806)	info on Rv3595c/PE_PGRS59
Rv2755c/hsdS.1	(cc=0.3681)	info on Rv2755c/hsdS.1

Correlation of Rv3621c/PPE65 with Rv2079/-

Normalized LFCs for Rv3621c/PPE65:
(description and provenance of datasets)

	Rv3621c/PPE65	Rv2079/-
Fe_supp_jason_reseq	1.108	-0.123
low_pH_jason_reseq	-0.261	-0.415
NO_jason_reseq	-0.139	0.777
B6_jason_reseq	0.629	-0.132
MHCII_jason_reseq	0.742	0.096
Isoniazid02	-0.019	-0.599
Rifampicin4	-0.141	0.081
Ethambutol3	0.0	-0.769
Meropenem3	1.579	0.362
Vancomycin16	0.199	-0.451
Rv2680_day32	0.526	0.061
H37Rv_KO_MarP	0.044	0.26
hypoxia_3wks	0.024	0.439
hypoxia_6wks	-0.173	0.067
glycerol	0.221	-0.168
cholesterol	-0.431	-0.653
AJ	0.405	0.062
Bibs02	0.261	0.436
Bibs02c	-0.246	0.0
BL6	0.188	-0.69
BL6a	-0.172	-0.109
BXD01	0.18	-0.643
BXD010	-0.825	-0.428
BXD011	1.466	0.12
BXD03	0.262	0.082
BXD04	0.245	0.452
BXD05	-0.237	-0.433
BXD06	-0.102	-0.32
BXD07	0.263	-0.025
BXD08	0.475	-0.137
BXD09	0.188	-0.245
CAST	0.252	0.465
CCcont	0.301	-0.445
DS01	-0.145	0.352
DS02	-0.233	0.239
DS04	0.628	-0.51
DS0c	-0.189	-0.181
GP01	-0.032	0.456
GP02	1.109	1.729
GP0c	0.366	0.253
NOD	0.918	0.932
NZO	0.965	0.403
PWK	0.601	-0.071
H37Rv_KO_CtpC	0.289	0.488
H37Rv_KO_CtpD	-0.041	0.373
H37Rv_KO_Rv1272	0.403	0.699
H37Rv_KO_SugABC	0.426	-0.009
H37Rv_KO_MbtN	0.723	0.985
Trans05	1.268	0.941
macrophage_unactivated	0.312	-0.23
IL1	-0.697	-0.386
Rapamycin	0.018	-0.709
Tcell	0.062	0.059
GMCSF	0.306	-0.143
IFNab	0.227	-0.514
IFNg	-0.158	-0.144
IFNg_GMCSF1	0.808	-0.471
Rv1432_day32	-0.546	0.13
Rv1565c_day32	0.483	0.395
secA2_input	0.282	0.142
delta_Rv3594	-0.179	0.292
delta_Rv3717	-0.483	0.544
delta_Rv3811	-0.103	0.021
delta_Rv0954	-0.224	0.102
PonA1	0.328	-0.254
EccD1_KO	0.875	0.378
EspI_KO	0.086	0.068
PE35_KO	0.557	0.169
PPE68_KO	0.467	0.259
glycerol2	0.667	0.364
lignocerate	0.665	0.554
oleate	0.469	0.074
phosphatidylcholine	0.577	0.619
acetate	0.168	0.086
glucAc	0.121	0.124
Rv0950ko	0.956	0.196
Rv1096ko	0.642	0.636
Rv3684ko	0.717	0.498
delta_otsA_trehalose	-0.261	-1.323