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 Rv2919c/glnB

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

	Rv2660c/-	Rv2919c/glnB
Fe_supp_jason_reseq	0.349	0.508
low_pH_jason_reseq	0.815	0.539
NO_jason_reseq	0.725	-0.331
B6_jason_reseq	0.689	3.226
MHCII_jason_reseq	1.056	2.315
Isoniazid02	0.631	0.146
Rifampicin4	0.157	-1.949
Ethambutol3	-0.36	-0.505
Meropenem3	0.707	-0.763
Vancomycin16	1.295	-0.138
Rv2680_day32	0.054	0.131
H37Rv_KO_MarP	0.539	-1.841
hypoxia_3wks	-0.845	-0.347
hypoxia_6wks	-1.848	-0.658
glycerol	-0.434	-0.029
cholesterol	0.064	0.141
AJ	0.123	0.402
Bibs02	0.842	1.428
Bibs02c	0.664	-0.797
BL6	-1.031	-1.492
BL6a	-0.298	-1.217
BXD01	-0.552	0.193
BXD010	-0.199	-1.416
BXD011	-0.347	-0.433
BXD03	-0.384	-1.103
BXD04	-0.575	0.288
BXD05	-0.154	-0.725
BXD06	0.018	-0.143
BXD07	0.205	-0.194
BXD08	-1.164	-1.586
BXD09	0.446	-1.06
CAST	0.823	1.308
CCcont	-0.041	-0.209
DS01	0.125	0.979
DS02	0.777	0.857
DS04	0.256	-0.208
DS0c	-0.905	0.855
GP01	-1.688	0.275
GP02	-1.641	-0.955
GP0c	-1.222	0.377
NOD	-0.303	-0.314
NZO	0.793	-1.026
PWK	-0.466	0.111
H37Rv_KO_CtpC	-0.007	1.418
H37Rv_KO_CtpD	-3.62	-2.487
H37Rv_KO_Rv1272	-1.054	-2.414
H37Rv_KO_SugABC	-0.348	-1.696
H37Rv_KO_MbtN	-1.142	-1.38
Trans05	0.228	-1.024
macrophage_unactivated	3.156	0.354
IL1	1.783	-0.119
Rapamycin	0.832	0.454
Tcell	0.052	0.124
GMCSF	0.85	0.296
IFNab	0.118	0.656
IFNg	-0.192	-1.513
IFNg_GMCSF1	1.031	1.364
Rv1432_day32	0.343	0.329
Rv1565c_day32	-0.855	0.0
secA2_input	0.96	0.163
delta_Rv3594	-1.447	1.41
delta_Rv3717	0.184	1.305
delta_Rv3811	0.992	0.831
delta_Rv0954	0.177	0.435
PonA1	1.222	1.887
EccD1_KO	0.398	0.898
EspI_KO	-0.299	0.485
PE35_KO	0.108	2.042
PPE68_KO	-0.56	1.181
glycerol2	1.289	1.044
lignocerate	2.166	2.125
oleate	-0.233	-2.481
phosphatidylcholine	1.608	2.008
acetate	2.13	3.511
glucAc	1.334	2.806
Rv0950ko	-0.326	1.508
Rv1096ko	-1.264	1.176
Rv3684ko	-0.835	0.314
delta_otsA_trehalose	0.128	-0.366