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 Rv1053c/-

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

	Rv3621c/PPE65	Rv1053c/-
Fe_supp_jason_reseq	1.108	3.157
low_pH_jason_reseq	-0.261	-0.586
NO_jason_reseq	-0.139	0.215
B6_jason_reseq	0.629	1.558
MHCII_jason_reseq	0.742	1.647
Isoniazid02	-0.019	0.023
Rifampicin4	-0.141	-0.374
Ethambutol3	0.0	0.259
Meropenem3	1.579	1.366
Vancomycin16	0.199	-0.088
Rv2680_day32	0.526	-0.332
H37Rv_KO_MarP	0.044	-0.48
hypoxia_3wks	0.024	0.455
hypoxia_6wks	-0.173	-0.814
glycerol	0.221	-1.483
cholesterol	-0.431	-0.441
AJ	0.405	0.318
Bibs02	0.261	1.495
Bibs02c	-0.246	0.476
BL6	0.188	-2.01
BL6a	-0.172	0.019
BXD01	0.18	-0.658
BXD010	-0.825	-2.179
BXD011	1.466	0.413
BXD03	0.262	0.38
BXD04	0.245	-0.409
BXD05	-0.237	-0.275
BXD06	-0.102	-0.653
BXD07	0.263	-0.251
BXD08	0.475	-0.532
BXD09	0.188	-0.582
CAST	0.252	-0.287
CCcont	0.301	-1.318
DS01	-0.145	-0.597
DS02	-0.233	1.352
DS04	0.628	-0.329
DS0c	-0.189	0.278
GP01	-0.032	0.72
GP02	1.109	0.462
GP0c	0.366	-0.313
NOD	0.918	0.973
NZO	0.965	0.406
PWK	0.601	1.965
H37Rv_KO_CtpC	0.289	1.897
H37Rv_KO_CtpD	-0.041	-2.035
H37Rv_KO_Rv1272	0.403	2.117
H37Rv_KO_SugABC	0.426	0.951
H37Rv_KO_MbtN	0.723	0.981
Trans05	1.268	0.64
macrophage_unactivated	0.312	-1.392
IL1	-0.697	-1.542
Rapamycin	0.018	-1.679
Tcell	0.062	-1.271
GMCSF	0.306	0.148
IFNab	0.227	-2.911
IFNg	-0.158	-0.208
IFNg_GMCSF1	0.808	-0.503
Rv1432_day32	-0.546	0.784
Rv1565c_day32	0.483	0.156
secA2_input	0.282	-1.827
delta_Rv3594	-0.179	0.528
delta_Rv3717	-0.483	0.706
delta_Rv3811	-0.103	0.341
delta_Rv0954	-0.224	-0.547
PonA1	0.328	-0.682
EccD1_KO	0.875	0.701
EspI_KO	0.086	0.582
PE35_KO	0.557	1.21
PPE68_KO	0.467	1.353
glycerol2	0.667	0.056
lignocerate	0.665	1.36
oleate	0.469	0.251
phosphatidylcholine	0.577	0.469
acetate	0.168	-0.853
glucAc	0.121	-0.913
Rv0950ko	0.956	-0.724
Rv1096ko	0.642	-0.024
Rv3684ko	0.717	0.324
delta_otsA_trehalose	-0.261	0.518