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 Rv0845/-:

update plot	correlation	link to info on gene
Rv3398c/idsA1	(cc=0.6026)	info on Rv3398c/idsA1
Rv2274A/mazE8	(cc=0.5504)	info on Rv2274A/mazE8
Rv1397c/vapC10	(cc=0.529)	info on Rv1397c/vapC10
Rv0827c/kmtR	(cc=0.5165)	info on Rv0827c/kmtR
Rv0388c/PPE9	(cc=0.5157)	info on Rv0388c/PPE9
Rv2275/-	(cc=0.5135)	info on Rv2275/-
Rv1870c/-	(cc=0.5068)	info on Rv1870c/-
Rv2339/mmpL9	(cc=0.4891)	info on Rv2339/mmpL9
Rv1216c/-	(cc=0.4807)	info on Rv1216c/-
Rv2137c/-	(cc=0.4646)	info on Rv2137c/-

Correlation of Rv0845/- with Rv0388c/PPE9

Normalized LFCs for Rv0845/-:
(description and provenance of datasets)

	Rv0845/-	Rv0388c/PPE9
Fe_supp_jason_reseq	-0.38	-0.923
low_pH_jason_reseq	0.815	-0.979
NO_jason_reseq	-0.41	-0.486
B6_jason_reseq	-0.712	-0.156
MHCII_jason_reseq	-1.227	-0.299
Isoniazid02	0.972	0.02
Rifampicin4	-0.081	0.717
Ethambutol3	0.472	-0.086
Meropenem3	-0.097	0.332
Vancomycin16	0.204	-0.151
Rv2680_day32	-0.313	-2.472
H37Rv_KO_MarP	0.141	-0.072
hypoxia_3wks	-0.088	-0.355
hypoxia_6wks	-0.14	-0.679
glycerol	-0.767	-0.762
cholesterol	-0.413	0.03
AJ	0.0	1.055
Bibs02	0.947	0.918
Bibs02c	0.226	0.694
BL6	-0.073	-0.721
BL6a	0.426	0.0
BXD01	0.572	0.704
BXD010	0.861	0.385
BXD011	0.568	0.982
BXD03	0.445	0.083
BXD04	0.457	-0.026
BXD05	-0.095	0.902
BXD06	0.223	-0.133
BXD07	0.259	0.279
BXD08	0.392	0.41
BXD09	0.497	0.233
CAST	0.537	0.711
CCcont	-0.035	-0.167
DS01	0.349	1.009
DS02	-0.347	1.457
DS04	0.287	1.279
DS0c	0.321	0.896
GP01	-0.119	-0.466
GP02	-1.034	-1.01
GP0c	-1.132	-1.716
NOD	0.376	2.372
NZO	1.046	0.961
PWK	0.192	0.307
H37Rv_KO_CtpC	0.713	1.467
H37Rv_KO_CtpD	0.797	-0.171
H37Rv_KO_Rv1272	0.65	0.905
H37Rv_KO_SugABC	0.814	1.027
H37Rv_KO_MbtN	0.723	0.557
Trans05	1.127	0.762
macrophage_unactivated	1.026	0.527
IL1	0.531	2.002
Rapamycin	0.632	1.82
Tcell	0.202	0.691
GMCSF	1.085	1.196
IFNab	0.187	1.611
IFNg	0.732	0.505
IFNg_GMCSF1	0.0	0.996
Rv1432_day32	0.407	0.343
Rv1565c_day32	0.379	0.0
secA2_input	-0.369	0.28
delta_Rv3594	-0.174	-1.077
delta_Rv3717	-0.656	-2.451
delta_Rv3811	0.171	-1.142
delta_Rv0954	0.213	-0.09
PonA1	-0.365	-0.77
EccD1_KO	0.763	-0.184
EspI_KO	0.63	0.419
PE35_KO	0.333	-0.478
PPE68_KO	0.288	-0.899
glycerol2	0.025	-1.135
lignocerate	-0.15	-0.84
oleate	0.364	-0.133
phosphatidylcholine	0.025	-0.535
acetate	-0.323	-0.306
glucAc	-0.577	-1.076
Rv0950ko	0.033	0.639
Rv1096ko	-0.133	0.73
Rv3684ko	0.141	0.891
delta_otsA_trehalose	-0.421	-0.356