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 Rv1987/-

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

	Rv0945/-	Rv1987/-
Fe_supp_jason_reseq	-1.432	0.813
low_pH_jason_reseq	0.216	-0.965
NO_jason_reseq	-1.769	-0.761
B6_jason_reseq	-2.038	0.082
MHCII_jason_reseq	-0.851	-0.367
Isoniazid02	-0.141	-0.346
Rifampicin4	-0.449	-0.709
Ethambutol3	-0.479	-0.343
Meropenem3	-0.285	-0.765
Vancomycin16	0.318	-0.053
Rv2680_day32	0.896	0.985
H37Rv_KO_MarP	0.265	-0.008
hypoxia_3wks	-2.333	-1.025
hypoxia_6wks	-1.979	-0.265
glycerol	2.127	-0.933
cholesterol	-0.647	-0.517
AJ	-0.881	-0.679
Bibs02	-1.592	0.878
Bibs02c	-1.085	0.697
BL6	0.723	0.885
BL6a	-0.626	0.422
BXD01	1.029	0.19
BXD010	-0.486	0.059
BXD011	-0.569	0.262
BXD03	-0.92	0.478
BXD04	0.426	0.068
BXD05	-0.602	0.698
BXD06	0.059	0.355
BXD07	-0.064	0.167
BXD08	1.986	0.438
BXD09	-0.36	0.363
CAST	-1.373	-0.289
CCcont	2.31	1.188
DS01	0.205	0.183
DS02	0.364	-0.072
DS04	-0.613	0.572
DS0c	-1.672	-0.083
GP01	1.651	0.187
GP02	-0.213	-0.69
GP0c	0.718	-0.935
NOD	-1.339	-0.295
NZO	-1.357	-0.767
PWK	-1.169	-0.163
H37Rv_KO_CtpC	2.408	0.154
H37Rv_KO_CtpD	-0.976	1.731
H37Rv_KO_Rv1272	0.778	0.848
H37Rv_KO_SugABC	-0.376	1.386
H37Rv_KO_MbtN	-0.614	-0.315
Trans05	0.611	0.03
macrophage_unactivated	2.326	0.265
IL1	-0.78	0.409
Rapamycin	-0.807	0.69
Tcell	2.63	-0.541
GMCSF	-0.694	0.393
IFNab	0.0	0.242
IFNg	-0.703	0.398
IFNg_GMCSF1	1.012	0.795
Rv1432_day32	0.0	0.194
Rv1565c_day32	0.0	0.117
secA2_input	-0.247	-0.418
delta_Rv3594	0.369	1.086
delta_Rv3717	-0.174	0.703
delta_Rv3811	0.805	0.747
delta_Rv0954	1.455	1.417
PonA1	0.212	-0.212
EccD1_KO	0.25	-0.615
EspI_KO	1.777	-0.331
PE35_KO	0.0	-0.079
PPE68_KO	0.586	0.214
glycerol2	3.113	2.285
lignocerate	3.78	2.814
oleate	-0.829	-1.163
phosphatidylcholine	2.899	2.129
acetate	4.666	2.72
glucAc	3.978	2.553
Rv0950ko	-0.09	0.033
Rv1096ko	0.0	-0.549
Rv3684ko	-0.96	-0.416
delta_otsA_trehalose	0.0	0.021