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 Rv0318c/-

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

	Rv2660c/-	Rv0318c/-
Fe_supp_jason_reseq	0.349	0.058
low_pH_jason_reseq	0.815	1.265
NO_jason_reseq	0.725	0.144
B6_jason_reseq	0.689	-0.141
MHCII_jason_reseq	1.056	0.08
Isoniazid02	0.631	0.116
Rifampicin4	0.157	-0.097
Ethambutol3	-0.36	-0.294
Meropenem3	0.707	1.397
Vancomycin16	1.295	0.271
Rv2680_day32	0.054	1.305
H37Rv_KO_MarP	0.539	0.787
hypoxia_3wks	-0.845	-0.116
hypoxia_6wks	-1.848	-0.783
glycerol	-0.434	-0.721
cholesterol	0.064	-0.642
AJ	0.123	0.247
Bibs02	0.842	0.269
Bibs02c	0.664	0.864
BL6	-1.031	0.494
BL6a	-0.298	-0.293
BXD01	-0.552	0.745
BXD010	-0.199	0.353
BXD011	-0.347	0.485
BXD03	-0.384	0.472
BXD04	-0.575	-0.613
BXD05	-0.154	-0.419
BXD06	0.018	0.249
BXD07	0.205	0.138
BXD08	-1.164	-0.28
BXD09	0.446	0.381
CAST	0.823	0.299
CCcont	-0.041	0.656
DS01	0.125	0.414
DS02	0.777	0.083
DS04	0.256	-0.363
DS0c	-0.905	-0.24
GP01	-1.688	-0.762
GP02	-1.641	-0.281
GP0c	-1.222	-0.644
NOD	-0.303	0.304
NZO	0.793	1.188
PWK	-0.466	0.449
H37Rv_KO_CtpC	-0.007	0.192
H37Rv_KO_CtpD	-3.62	0.186
H37Rv_KO_Rv1272	-1.054	-0.504
H37Rv_KO_SugABC	-0.348	1.097
H37Rv_KO_MbtN	-1.142	-0.74
Trans05	0.228	0.286
macrophage_unactivated	3.156	1.345
IL1	1.783	0.258
Rapamycin	0.832	0.789
Tcell	0.052	1.362
GMCSF	0.85	0.628
IFNab	0.118	1.055
IFNg	-0.192	0.861
IFNg_GMCSF1	1.031	0.927
Rv1432_day32	0.343	1.232
Rv1565c_day32	-0.855	-0.145
secA2_input	0.96	-0.147
delta_Rv3594	-1.447	-0.589
delta_Rv3717	0.184	-0.692
delta_Rv3811	0.992	-0.744
delta_Rv0954	0.177	-0.327
PonA1	1.222	0.501
EccD1_KO	0.398	-0.25
EspI_KO	-0.299	-0.24
PE35_KO	0.108	-0.047
PPE68_KO	-0.56	0.0
glycerol2	1.289	1.264
lignocerate	2.166	1.684
oleate	-0.233	0.88
phosphatidylcholine	1.608	1.401
acetate	2.13	1.295
glucAc	1.334	1.056
Rv0950ko	-0.326	-0.627
Rv1096ko	-1.264	-0.54
Rv3684ko	-0.835	-0.196
delta_otsA_trehalose	0.128	-0.035