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 Rv2660c/-:

update plot	correlation	link to info on gene
Rv0601c/-	(cc=0.6105)	info on Rv0601c/-
Rv0318c/-	(cc=0.542)	info on Rv0318c/-
Rv2532c/-	(cc=0.5241)	info on Rv2532c/-
Rv0319/pcp	(cc=0.5009)	info on Rv0319/pcp
Rv0789c/-	(cc=0.4955)	info on Rv0789c/-
Rv1162/narH	(cc=0.4696)	info on Rv1162/narH
Rv2919c/glnB	(cc=0.4636)	info on Rv2919c/glnB
Rv2802c/-	(cc=0.4483)	info on Rv2802c/-
Rv3534c/hsaF	(cc=0.4433)	info on Rv3534c/hsaF
Rv2813/-	(cc=0.4366)	info on Rv2813/-

Correlation of Rv2660c/- with Rv2802c/-

Normalized LFCs for Rv2660c/-:
(description and provenance of datasets)

	Rv2660c/-	Rv2802c/-
Fe_supp_jason_reseq	0.349	0.103
low_pH_jason_reseq	0.815	-0.356
NO_jason_reseq	0.725	0.197
B6_jason_reseq	0.689	-0.83
MHCII_jason_reseq	1.056	0.351
Isoniazid02	0.631	0.389
Rifampicin4	0.157	1.332
Ethambutol3	-0.36	0.901
Meropenem3	0.707	0.944
Vancomycin16	1.295	0.658
Rv2680_day32	0.054	0.848
H37Rv_KO_MarP	0.539	-0.313
hypoxia_3wks	-0.845	-0.881
hypoxia_6wks	-1.848	-0.274
glycerol	-0.434	1.284
cholesterol	0.064	1.044
AJ	0.123	0.548
Bibs02	0.842	0.791
Bibs02c	0.664	-0.073
BL6	-1.031	0.275
BL6a	-0.298	-0.773
BXD01	-0.552	-0.036
BXD010	-0.199	-0.118
BXD011	-0.347	-0.629
BXD03	-0.384	-0.217
BXD04	-0.575	-0.377
BXD05	-0.154	0.948
BXD06	0.018	-0.153
BXD07	0.205	-0.314
BXD08	-1.164	-0.358
BXD09	0.446	-0.009
CAST	0.823	0.092
CCcont	-0.041	0.564
DS01	0.125	0.881
DS02	0.777	0.758
DS04	0.256	1.345
DS0c	-0.905	-0.437
GP01	-1.688	0.606
GP02	-1.641	0.95
GP0c	-1.222	0.603
NOD	-0.303	-0.854
NZO	0.793	-0.169
PWK	-0.466	0.091
H37Rv_KO_CtpC	-0.007	-0.438
H37Rv_KO_CtpD	-3.62	-0.035
H37Rv_KO_Rv1272	-1.054	-0.947
H37Rv_KO_SugABC	-0.348	0.15
H37Rv_KO_MbtN	-1.142	-0.85
Trans05	0.228	0.792
macrophage_unactivated	3.156	0.96
IL1	1.783	1.264
Rapamycin	0.832	0.104
Tcell	0.052	0.055
GMCSF	0.85	-0.65
IFNab	0.118	0.051
IFNg	-0.192	0.313
IFNg_GMCSF1	1.031	-0.55
Rv1432_day32	0.343	-0.398
Rv1565c_day32	-0.855	-1.69
secA2_input	0.96	0.348
delta_Rv3594	-1.447	-0.278
delta_Rv3717	0.184	0.448
delta_Rv3811	0.992	0.174
delta_Rv0954	0.177	0.265
PonA1	1.222	1.03
EccD1_KO	0.398	1.197
EspI_KO	-0.299	0.448
PE35_KO	0.108	0.102
PPE68_KO	-0.56	1.075
glycerol2	1.289	2.393
lignocerate	2.166	3.377
oleate	-0.233	-0.216
phosphatidylcholine	1.608	2.644
acetate	2.13	3.536
glucAc	1.334	2.965
Rv0950ko	-0.326	0.389
Rv1096ko	-1.264	0.455
Rv3684ko	-0.835	1.287
delta_otsA_trehalose	0.128	0.61