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 Rv0945/-:

update plot	correlation	link to info on gene
Rv2237/-	(cc=0.684)	info on Rv2237/-
Rv0698/-	(cc=0.5902)	info on Rv0698/-
Rv2219/-	(cc=0.58)	info on Rv2219/-
Rv2802c/-	(cc=0.577)	info on Rv2802c/-
Rv3287c/rsbW	(cc=0.559)	info on Rv3287c/rsbW
Rv0042c/-	(cc=0.555)	info on Rv0042c/-
Rv0590A/-	(cc=0.548)	info on Rv0590A/-
Rv0789c/-	(cc=0.5442)	info on Rv0789c/-
Rv1987/-	(cc=0.5434)	info on Rv1987/-
Rv3213c/-	(cc=0.5411)	info on Rv3213c/-

Correlation of Rv0945/- with Rv2237/-

Normalized LFCs for Rv0945/-:
(description and provenance of datasets)

	Rv0945/-	Rv2237/-
Fe_supp_jason_reseq	-1.432	0.23
low_pH_jason_reseq	0.216	-0.676
NO_jason_reseq	-1.769	-0.302
B6_jason_reseq	-2.038	-0.548
MHCII_jason_reseq	-0.851	0.053
Isoniazid02	-0.141	0.397
Rifampicin4	-0.449	-0.674
Ethambutol3	-0.479	-0.32
Meropenem3	-0.285	-0.231
Vancomycin16	0.318	-0.064
Rv2680_day32	0.896	0.594
H37Rv_KO_MarP	0.265	0.254
hypoxia_3wks	-2.333	-0.762
hypoxia_6wks	-1.979	-0.814
glycerol	2.127	0.12
cholesterol	-0.647	0.447
AJ	-0.881	0.235
Bibs02	-1.592	0.013
Bibs02c	-1.085	-0.52
BL6	0.723	0.847
BL6a	-0.626	0.201
BXD01	1.029	-0.443
BXD010	-0.486	0.241
BXD011	-0.569	0.53
BXD03	-0.92	-0.725
BXD04	0.426	-0.369
BXD05	-0.602	0.165
BXD06	0.059	0.284
BXD07	-0.064	-0.399
BXD08	1.986	-0.084
BXD09	-0.36	0.228
CAST	-1.373	-0.464
CCcont	2.31	1.023
DS01	0.205	0.399
DS02	0.364	1.096
DS04	-0.613	0.45
DS0c	-1.672	0.129
GP01	1.651	0.95
GP02	-0.213	-0.93
GP0c	0.718	0.356
NOD	-1.339	-0.371
NZO	-1.357	0.35
PWK	-1.169	-0.625
H37Rv_KO_CtpC	2.408	-0.013
H37Rv_KO_CtpD	-0.976	-0.315
H37Rv_KO_Rv1272	0.778	-0.297
H37Rv_KO_SugABC	-0.376	0.422
H37Rv_KO_MbtN	-0.614	0.656
Trans05	0.611	0.02
macrophage_unactivated	2.326	0.076
IL1	-0.78	0.24
Rapamycin	-0.807	-0.11
Tcell	2.63	0.339
GMCSF	-0.694	-0.261
IFNab	0.0	0.0
IFNg	-0.703	0.644
IFNg_GMCSF1	1.012	0.628
Rv1432_day32	0.0	-0.01
Rv1565c_day32	0.0	-0.479
secA2_input	-0.247	0.252
delta_Rv3594	0.369	1.153
delta_Rv3717	-0.174	1.364
delta_Rv3811	0.805	0.772
delta_Rv0954	1.455	0.16
PonA1	0.212	0.84
EccD1_KO	0.25	0.53
EspI_KO	1.777	0.91
PE35_KO	0.0	0.858
PPE68_KO	0.586	0.733
glycerol2	3.113	1.88
lignocerate	3.78	2.527
oleate	-0.829	-1.276
phosphatidylcholine	2.899	2.426
acetate	4.666	2.72
glucAc	3.978	2.503
Rv0950ko	-0.09	0.0
Rv1096ko	0.0	-0.078
Rv3684ko	-0.96	-0.819
delta_otsA_trehalose	0.0	-0.569