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 Rv1218c/-:

update plot	correlation	link to info on gene
Rv1517/-	(cc=0.5521)	info on Rv1517/-
Rv1914c/-	(cc=0.5513)	info on Rv1914c/-
Rv3125c/PPE49	(cc=0.5377)	info on Rv3125c/PPE49
Rv1526c/-	(cc=0.5171)	info on Rv1526c/-
Rv3831/-	(cc=0.5091)	info on Rv3831/-
Rv2452c/-	(cc=0.5061)	info on Rv2452c/-
Rv0844c/narL	(cc=0.4689)	info on Rv0844c/narL
Rv1891/-	(cc=0.4649)	info on Rv1891/-
Rv2818c/-	(cc=0.4618)	info on Rv2818c/-
Rv1548c/PPE21	(cc=0.4556)	info on Rv1548c/PPE21

Correlation of Rv1218c/- with Rv3831/-

Normalized LFCs for Rv1218c/-:
(description and provenance of datasets)

	Rv1218c/-	Rv3831/-
Fe_supp_jason_reseq	0.395	-0.936
low_pH_jason_reseq	-0.9	-1.268
NO_jason_reseq	-0.845	0.507
B6_jason_reseq	-0.335	-0.669
MHCII_jason_reseq	-1.292	-0.863
Isoniazid02	-0.144	0.086
Rifampicin4	0.19	-0.073
Ethambutol3	-0.12	0.218
Meropenem3	-0.631	0.089
Vancomycin16	-0.435	0.332
Rv2680_day32	1.257	1.877
H37Rv_KO_MarP	0.995	0.879
hypoxia_3wks	0.044	-0.1
hypoxia_6wks	-1.1	0.061
glycerol	-0.551	-0.12
cholesterol	0.017	0.415
AJ	0.264	-0.185
Bibs02	0.086	0.128
Bibs02c	-0.324	-0.74
BL6	0.115	0.555
BL6a	0.225	0.349
BXD01	0.356	0.234
BXD010	0.856	1.308
BXD011	1.3	1.212
BXD03	1.231	0.415
BXD04	0.947	0.627
BXD05	1.639	1.011
BXD06	0.015	0.838
BXD07	1.183	0.472
BXD08	0.691	0.706
BXD09	1.068	0.828
CAST	0.734	0.052
CCcont	0.394	0.32
DS01	0.0	0.506
DS02	0.384	0.377
DS04	-0.247	-0.476
DS0c	-0.768	0.512
GP01	0.733	0.651
GP02	1.787	1.442
GP0c	1.472	1.265
NOD	-0.055	0.425
NZO	-0.074	0.925
PWK	-0.146	-0.165
H37Rv_KO_CtpC	0.518	-0.071
H37Rv_KO_CtpD	0.448	1.321
H37Rv_KO_Rv1272	1.013	0.843
H37Rv_KO_SugABC	0.194	0.417
H37Rv_KO_MbtN	-0.013	-0.891
Trans05	0.63	0.61
macrophage_unactivated	0.262	-0.022
IL1	0.673	-0.101
Rapamycin	0.525	0.298
Tcell	-0.326	0.049
GMCSF	0.742	0.372
IFNab	0.574	-0.045
IFNg	1.216	0.358
IFNg_GMCSF1	0.446	0.226
Rv1432_day32	0.0	0.151
Rv1565c_day32	0.057	0.886
secA2_input	-0.407	0.595
delta_Rv3594	1.331	-0.234
delta_Rv3717	-0.413	-0.369
delta_Rv3811	1.437	0.037
delta_Rv0954	-0.183	0.039
PonA1	0.511	0.641
EccD1_KO	1.131	-0.138
EspI_KO	0.402	0.197
PE35_KO	0.875	0.172
PPE68_KO	0.96	-0.061
glycerol2	-0.343	0.101
lignocerate	0.449	0.026
oleate	-0.19	0.03
phosphatidylcholine	0.339	0.196
acetate	-0.223	-0.482
glucAc	-0.281	-0.166
Rv0950ko	-0.184	0.528
Rv1096ko	0.507	0.314
Rv3684ko	-0.301	-0.039
delta_otsA_trehalose	-0.324	0.068