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 Rv0960/vapC9:

update plot	correlation	link to info on gene
Rv1809/PPE33	(cc=0.5268)	info on Rv1809/PPE33
Rv3238c/-	(cc=0.4467)	info on Rv3238c/-
Rv1591/-	(cc=0.4419)	info on Rv1591/-
Rv2590/fadD9	(cc=0.4385)	info on Rv2590/fadD9
Rv3235/-	(cc=0.427)	info on Rv3235/-
Rv0915c/PPE14	(cc=0.4136)	info on Rv0915c/PPE14
Rv2557/-	(cc=0.4125)	info on Rv2557/-
Rv2024c/-	(cc=0.4118)	info on Rv2024c/-
Rv3736/-	(cc=0.4084)	info on Rv3736/-
Rv3290c/lat	(cc=0.3999)	info on Rv3290c/lat

Correlation of Rv0960/vapC9 with Rv1809/PPE33

Normalized LFCs for Rv0960/vapC9:
(description and provenance of datasets)

	Rv0960/vapC9	Rv1809/PPE33
Fe_supp_jason_reseq	-1.844	-0.895
low_pH_jason_reseq	-0.457	0.0
NO_jason_reseq	-0.362	-1.79
B6_jason_reseq	-1.349	-2.074
MHCII_jason_reseq	-0.342	-1.223
Isoniazid02	0.031	0.566
Rifampicin4	0.95	-0.084
Ethambutol3	0.303	-0.299
Meropenem3	1.523	0.585
Vancomycin16	0.135	0.22
Rv2680_day32	-0.052	-0.943
H37Rv_KO_MarP	0.395	0.12
hypoxia_3wks	-0.49	0.124
hypoxia_6wks	-0.376	-0.027
glycerol	-0.761	-0.427
cholesterol	0.029	0.34
AJ	0.592	-0.424
Bibs02	1.091	0.607
Bibs02c	-0.058	0.881
BL6	-0.331	0.683
BL6a	0.04	0.646
BXD01	-0.224	0.211
BXD010	-0.189	0.325
BXD011	-0.79	0.089
BXD03	0.843	0.409
BXD04	0.776	0.501
BXD05	-0.646	0.892
BXD06	0.156	0.305
BXD07	0.074	0.126
BXD08	0.139	0.141
BXD09	0.232	0.179
CAST	-0.609	-1.098
CCcont	-0.162	0.996
DS01	0.498	1.483
DS02	0.173	1.279
DS04	0.627	0.817
DS0c	0.588	1.381
GP01	0.83	0.817
GP02	1.002	0.135
GP0c	-0.045	1.366
NOD	-0.278	-0.389
NZO	-1.74	-2.092
PWK	-0.818	-1.171
H37Rv_KO_CtpC	0.033	0.744
H37Rv_KO_CtpD	0.554	1.382
H37Rv_KO_Rv1272	-0.451	1.874
H37Rv_KO_SugABC	1.658	0.592
H37Rv_KO_MbtN	1.095	0.841
Trans05	-0.467	1.403
macrophage_unactivated	0.455	0.357
IL1	0.899	1.011
Rapamycin	0.663	1.157
Tcell	0.469	0.414
GMCSF	0.85	1.167
IFNab	0.683	1.067
IFNg	-0.257	0.959
IFNg_GMCSF1	1.612	0.811
Rv1432_day32	0.489	-0.395
Rv1565c_day32	-0.325	-0.073
secA2_input	-0.263	0.41
delta_Rv3594	-0.665	-0.509
delta_Rv3717	0.17	-0.24
delta_Rv3811	-0.913	-0.47
delta_Rv0954	-0.636	-0.408
PonA1	0.103	-0.955
EccD1_KO	0.434	0.934
EspI_KO	0.961	0.87
PE35_KO	1.103	1.035
PPE68_KO	0.761	1.238
glycerol2	0.993	2.092
lignocerate	0.477	0.997
oleate	0.978	0.084
phosphatidylcholine	0.767	1.793
acetate	-0.452	0.424
glucAc	-0.717	0.253
Rv0950ko	0.473	-0.015
Rv1096ko	0.371	-0.368
Rv3684ko	1.117	-0.095
delta_otsA_trehalose	0.725	0.69