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 Rv3138/pflA:

update plot	correlation	link to info on gene
Rv2998/-	(cc=0.5123)	info on Rv2998/-
Rv0905/echA6	(cc=0.4915)	info on Rv0905/echA6
Rv0397A/-	(cc=0.4896)	info on Rv0397A/-
Rv0365c/-	(cc=0.4881)	info on Rv0365c/-
Rv1525/wbbL2	(cc=0.4791)	info on Rv1525/wbbL2
Rv3126c/-	(cc=0.4715)	info on Rv3126c/-
Rv3529c/-	(cc=0.4674)	info on Rv3529c/-
Rv0605/-	(cc=0.4519)	info on Rv0605/-
Rv0845/-	(cc=0.4493)	info on Rv0845/-
Rv2634c/PE_PGRS46	(cc=0.4489)	info on Rv2634c/PE_PGRS46

Correlation of Rv3138/pflA with Rv0845/-

Normalized LFCs for Rv3138/pflA:
(description and provenance of datasets)

	Rv3138/pflA	Rv0845/-
Fe_supp_jason_reseq	-0.298	-0.38
low_pH_jason_reseq	0.089	0.815
NO_jason_reseq	-0.06	-0.41
B6_jason_reseq	-0.658	-0.712
MHCII_jason_reseq	-0.094	-1.227
Isoniazid02	0.153	0.972
Rifampicin4	-0.173	-0.081
Ethambutol3	0.358	0.472
Meropenem3	-0.818	-0.097
Vancomycin16	-0.485	0.204
Rv2680_day32	-0.696	-0.313
H37Rv_KO_MarP	0.346	0.141
hypoxia_3wks	-0.032	-0.088
hypoxia_6wks	-0.081	-0.14
glycerol	-0.575	-0.767
cholesterol	0.068	-0.413
AJ	0.425	0.0
Bibs02	0.527	0.947
Bibs02c	0.582	0.226
BL6	0.17	-0.073
BL6a	0.732	0.426
BXD01	0.703	0.572
BXD010	0.479	0.861
BXD011	2.15	0.568
BXD03	0.39	0.445
BXD04	0.702	0.457
BXD05	0.833	-0.095
BXD06	0.587	0.223
BXD07	0.831	0.259
BXD08	0.054	0.392
BXD09	0.746	0.497
CAST	-0.132	0.537
CCcont	0.454	-0.035
DS01	0.0	0.349
DS02	0.269	-0.347
DS04	-0.571	0.287
DS0c	0.36	0.321
GP01	0.456	-0.119
GP02	0.077	-1.034
GP0c	-0.103	-1.132
NOD	-0.212	0.376
NZO	0.678	1.046
PWK	0.772	0.192
H37Rv_KO_CtpC	-0.241	0.713
H37Rv_KO_CtpD	-0.198	0.797
H37Rv_KO_Rv1272	0.362	0.65
H37Rv_KO_SugABC	-0.155	0.814
H37Rv_KO_MbtN	-0.113	0.723
Trans05	0.469	1.127
macrophage_unactivated	1.275	1.026
IL1	0.736	0.531
Rapamycin	0.292	0.632
Tcell	0.489	0.202
GMCSF	0.57	1.085
IFNab	0.133	0.187
IFNg	0.454	0.732
IFNg_GMCSF1	0.877	0.0
Rv1432_day32	0.159	0.407
Rv1565c_day32	0.224	0.379
secA2_input	-0.366	-0.369
delta_Rv3594	-0.878	-0.174
delta_Rv3717	-0.943	-0.656
delta_Rv3811	-0.665	0.171
delta_Rv0954	0.12	0.213
PonA1	-0.459	-0.365
EccD1_KO	0.98	0.763
EspI_KO	0.268	0.63
PE35_KO	0.274	0.333
PPE68_KO	0.358	0.288
glycerol2	0.156	0.025
lignocerate	0.379	-0.15
oleate	0.021	0.364
phosphatidylcholine	0.328	0.025
acetate	-0.286	-0.323
glucAc	-0.017	-0.577
Rv0950ko	0.28	0.033
Rv1096ko	0.13	-0.133
Rv3684ko	0.616	0.141
delta_otsA_trehalose	0.181	-0.421