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 Rv0221/-:

update plot	correlation	link to info on gene
Rv0918/-	(cc=0.4923)	info on Rv0918/-
Rv0071/-	(cc=0.4739)	info on Rv0071/-
Rv2882c/frr	(cc=0.4731)	info on Rv2882c/frr
Rv2678c/hemE	(cc=0.4622)	info on Rv2678c/hemE
Rv3135/PPE50	(cc=0.4602)	info on Rv3135/PPE50
Rv3673c/-	(cc=0.455)	info on Rv3673c/-
Rv3858c/gltD	(cc=0.445)	info on Rv3858c/gltD
Rv3606c/folK	(cc=0.4331)	info on Rv3606c/folK
Rv3753c/-	(cc=0.4254)	info on Rv3753c/-
Rv3765c/tcrX	(cc=0.4185)	info on Rv3765c/tcrX

Correlation of Rv0221/- with Rv3765c/tcrX

Normalized LFCs for Rv0221/-:
(description and provenance of datasets)

	Rv0221/-	Rv3765c/tcrX
Fe_supp_jason_reseq	1.018	0.309
low_pH_jason_reseq	0.264	-0.256
NO_jason_reseq	-0.252	-0.276
B6_jason_reseq	1.237	0.547
MHCII_jason_reseq	1.549	0.536
Isoniazid02	0.627	0.166
Rifampicin4	0.07	-0.108
Ethambutol3	0.685	0.463
Meropenem3	0.208	0.056
Vancomycin16	0.239	0.674
Rv2680_day32	0.687	-0.121
H37Rv_KO_MarP	0.524	0.282
hypoxia_3wks	0.195	0.247
hypoxia_6wks	0.714	0.875
glycerol	0.184	0.372
cholesterol	-0.282	0.151
AJ	-0.198	0.776
Bibs02	0.025	-0.287
Bibs02c	0.243	0.84
BL6	0.323	0.725
BL6a	0.382	0.327
BXD01	-0.121	-0.104
BXD010	0.372	0.636
BXD011	0.435	-0.211
BXD03	0.261	0.176
BXD04	0.008	-0.185
BXD05	0.205	-0.118
BXD06	-0.066	0.278
BXD07	0.065	0.233
BXD08	0.33	-0.436
BXD09	0.341	0.09
CAST	0.295	0.315
CCcont	0.173	-0.072
DS01	0.4	0.785
DS02	-0.17	0.857
DS04	0.963	0.533
DS0c	0.143	0.668
GP01	-0.014	1.007
GP02	-0.204	1.229
GP0c	-0.848	-0.772
NOD	0.42	0.264
NZO	0.144	1.123
PWK	0.539	0.698
H37Rv_KO_CtpC	0.394	-0.591
H37Rv_KO_CtpD	0.193	0.573
H37Rv_KO_Rv1272	0.129	0.237
H37Rv_KO_SugABC	-0.504	0.324
H37Rv_KO_MbtN	-0.057	-1.647
Trans05	-0.093	0.789
macrophage_unactivated	-0.23	-0.489
IL1	0.273	-0.104
Rapamycin	0.325	0.015
Tcell	-0.026	-0.557
GMCSF	0.061	0.214
IFNab	-0.145	-0.26
IFNg	0.382	0.925
IFNg_GMCSF1	0.072	-0.336
Rv1432_day32	0.828	0.49
Rv1565c_day32	-0.344	-0.338
secA2_input	-0.207	-1.263
delta_Rv3594	-0.054	-0.115
delta_Rv3717	-0.537	-0.398
delta_Rv3811	-0.522	0.064
delta_Rv0954	0.044	-0.019
PonA1	0.512	0.335
EccD1_KO	-1.043	-0.71
EspI_KO	-0.841	-0.85
PE35_KO	-0.668	-0.449
PPE68_KO	-0.63	-0.953
glycerol2	0.443	0.44
lignocerate	0.75	0.852
oleate	0.339	0.363
phosphatidylcholine	0.335	0.517
acetate	0.151	1.39
glucAc	0.282	1.109
Rv0950ko	0.103	-0.277
Rv1096ko	0.621	-0.262
Rv3684ko	0.075	-0.301
delta_otsA_trehalose	-0.155	0.911