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 Rv1894c/-

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

	Rv3621c/PPE65	Rv1894c/-
Fe_supp_jason_reseq	1.108	-0.472
low_pH_jason_reseq	-0.261	-0.959
NO_jason_reseq	-0.139	0.588
B6_jason_reseq	0.629	0.018
MHCII_jason_reseq	0.742	0.616
Isoniazid02	-0.019	-0.904
Rifampicin4	-0.141	-0.125
Ethambutol3	0.0	-0.181
Meropenem3	1.579	1.114
Vancomycin16	0.199	-0.695
Rv2680_day32	0.526	-0.345
H37Rv_KO_MarP	0.044	0.058
hypoxia_3wks	0.024	-0.283
hypoxia_6wks	-0.173	0.079
glycerol	0.221	0.064
cholesterol	-0.431	0.043
AJ	0.405	-0.061
Bibs02	0.261	0.083
Bibs02c	-0.246	-0.059
BL6	0.188	-0.702
BL6a	-0.172	-0.41
BXD01	0.18	-0.256
BXD010	-0.825	-0.792
BXD011	1.466	0.4
BXD03	0.262	-1.064
BXD04	0.245	-1.142
BXD05	-0.237	-0.608
BXD06	-0.102	-0.848
BXD07	0.263	-0.978
BXD08	0.475	-0.337
BXD09	0.188	-0.823
CAST	0.252	0.656
CCcont	0.301	-1.281
DS01	-0.145	0.175
DS02	-0.233	-0.129
DS04	0.628	-0.022
DS0c	-0.189	-0.233
GP01	-0.032	-0.748
GP02	1.109	0.116
GP0c	0.366	-0.767
NOD	0.918	1.357
NZO	0.965	0.244
PWK	0.601	0.392
H37Rv_KO_CtpC	0.289	-0.069
H37Rv_KO_CtpD	-0.041	-0.838
H37Rv_KO_Rv1272	0.403	0.064
H37Rv_KO_SugABC	0.426	0.722
H37Rv_KO_MbtN	0.723	0.827
Trans05	1.268	0.568
macrophage_unactivated	0.312	-0.884
IL1	-0.697	-0.578
Rapamycin	0.018	-0.957
Tcell	0.062	-0.541
GMCSF	0.306	-0.325
IFNab	0.227	-0.895
IFNg	-0.158	-1.269
IFNg_GMCSF1	0.808	0.06
Rv1432_day32	-0.546	0.13
Rv1565c_day32	0.483	0.289
secA2_input	0.282	-0.009
delta_Rv3594	-0.179	0.217
delta_Rv3717	-0.483	0.019
delta_Rv3811	-0.103	0.311
delta_Rv0954	-0.224	-0.19
PonA1	0.328	0.473
EccD1_KO	0.875	0.191
EspI_KO	0.086	0.202
PE35_KO	0.557	0.289
PPE68_KO	0.467	0.042
glycerol2	0.667	0.769
lignocerate	0.665	0.418
oleate	0.469	1.127
phosphatidylcholine	0.577	0.973
acetate	0.168	-0.495
glucAc	0.121	-0.634
Rv0950ko	0.956	0.959
Rv1096ko	0.642	0.576
Rv3684ko	0.717	0.75
delta_otsA_trehalose	-0.261	0.739