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 Rv2339/mmpL9

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

	Rv0845/-	Rv2339/mmpL9
Fe_supp_jason_reseq	-0.38	0.283
low_pH_jason_reseq	0.815	-0.164
NO_jason_reseq	-0.41	-0.349
B6_jason_reseq	-0.712	-0.289
MHCII_jason_reseq	-1.227	0.481
Isoniazid02	0.972	0.375
Rifampicin4	-0.081	0.0
Ethambutol3	0.472	0.568
Meropenem3	-0.097	-0.052
Vancomycin16	0.204	0.146
Rv2680_day32	-0.313	0.365
H37Rv_KO_MarP	0.141	0.047
hypoxia_3wks	-0.088	0.267
hypoxia_6wks	-0.14	-0.177
glycerol	-0.767	-0.426
cholesterol	-0.413	-0.305
AJ	0.0	0.247
Bibs02	0.947	-0.127
Bibs02c	0.226	-0.276
BL6	-0.073	0.196
BL6a	0.426	0.211
BXD01	0.572	0.253
BXD010	0.861	0.557
BXD011	0.568	0.394
BXD03	0.445	0.36
BXD04	0.457	0.565
BXD05	-0.095	0.615
BXD06	0.223	0.413
BXD07	0.259	0.295
BXD08	0.392	0.087
BXD09	0.497	0.41
CAST	0.537	0.404
CCcont	-0.035	-0.197
DS01	0.349	0.154
DS02	-0.347	-0.126
DS04	0.287	0.6
DS0c	0.321	0.578
GP01	-0.119	0.591
GP02	-1.034	0.138
GP0c	-1.132	0.057
NOD	0.376	1.289
NZO	1.046	0.35
PWK	0.192	0.47
H37Rv_KO_CtpC	0.713	0.488
H37Rv_KO_CtpD	0.797	0.668
H37Rv_KO_Rv1272	0.65	1.099
H37Rv_KO_SugABC	0.814	0.751
H37Rv_KO_MbtN	0.723	0.571
Trans05	1.127	1.072
macrophage_unactivated	1.026	0.42
IL1	0.531	0.611
Rapamycin	0.632	0.724
Tcell	0.202	-0.648
GMCSF	1.085	1.225
IFNab	0.187	0.801
IFNg	0.732	1.056
IFNg_GMCSF1	0.0	0.55
Rv1432_day32	0.407	0.576
Rv1565c_day32	0.379	0.3
secA2_input	-0.369	-0.631
delta_Rv3594	-0.174	-0.072
delta_Rv3717	-0.656	0.0
delta_Rv3811	0.171	0.046
delta_Rv0954	0.213	0.079
PonA1	-0.365	-0.293
EccD1_KO	0.763	-0.046
EspI_KO	0.63	-0.168
PE35_KO	0.333	0.166
PPE68_KO	0.288	0.355
glycerol2	0.025	0.0
lignocerate	-0.15	0.339
oleate	0.364	0.081
phosphatidylcholine	0.025	0.231
acetate	-0.323	-0.048
glucAc	-0.577	-0.227
Rv0950ko	0.033	0.121
Rv1096ko	-0.133	-1.095
Rv3684ko	0.141	-0.223
delta_otsA_trehalose	-0.421	-0.557