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 Rv1216c/-

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

	Rv0845/-	Rv1216c/-
Fe_supp_jason_reseq	-0.38	0.101
low_pH_jason_reseq	0.815	0.253
NO_jason_reseq	-0.41	-0.307
B6_jason_reseq	-0.712	-0.659
MHCII_jason_reseq	-1.227	-0.196
Isoniazid02	0.972	0.012
Rifampicin4	-0.081	-0.211
Ethambutol3	0.472	-0.242
Meropenem3	-0.097	-0.083
Vancomycin16	0.204	0.021
Rv2680_day32	-0.313	-0.377
H37Rv_KO_MarP	0.141	0.577
hypoxia_3wks	-0.088	0.255
hypoxia_6wks	-0.14	-0.244
glycerol	-0.767	-0.43
cholesterol	-0.413	-0.6
AJ	0.0	0.506
Bibs02	0.947	1.037
Bibs02c	0.226	-0.247
BL6	-0.073	0.758
BL6a	0.426	0.096
BXD01	0.572	0.725
BXD010	0.861	0.655
BXD011	0.568	0.271
BXD03	0.445	0.861
BXD04	0.457	0.706
BXD05	-0.095	0.231
BXD06	0.223	0.703
BXD07	0.259	0.729
BXD08	0.392	0.754
BXD09	0.497	0.602
CAST	0.537	0.455
CCcont	-0.035	0.435
DS01	0.349	0.38
DS02	-0.347	-0.318
DS04	0.287	0.645
DS0c	0.321	0.473
GP01	-0.119	0.527
GP02	-1.034	-0.244
GP0c	-1.132	-0.257
NOD	0.376	0.612
NZO	1.046	-0.038
PWK	0.192	0.22
H37Rv_KO_CtpC	0.713	-0.192
H37Rv_KO_CtpD	0.797	0.327
H37Rv_KO_Rv1272	0.65	-0.045
H37Rv_KO_SugABC	0.814	-0.219
H37Rv_KO_MbtN	0.723	1.059
Trans05	1.127	-0.239
macrophage_unactivated	1.026	0.152
IL1	0.531	0.062
Rapamycin	0.632	0.27
Tcell	0.202	0.756
GMCSF	1.085	0.232
IFNab	0.187	-0.063
IFNg	0.732	0.075
IFNg_GMCSF1	0.0	-0.066
Rv1432_day32	0.407	-0.053
Rv1565c_day32	0.379	-0.175
secA2_input	-0.369	-0.153
delta_Rv3594	-0.174	0.266
delta_Rv3717	-0.656	-0.145
delta_Rv3811	0.171	-0.013
delta_Rv0954	0.213	-0.176
PonA1	-0.365	-0.953
EccD1_KO	0.763	0.395
EspI_KO	0.63	0.425
PE35_KO	0.333	0.405
PPE68_KO	0.288	0.909
glycerol2	0.025	0.0
lignocerate	-0.15	-0.502
oleate	0.364	0.449
phosphatidylcholine	0.025	0.262
acetate	-0.323	-0.598
glucAc	-0.577	-0.607
Rv0950ko	0.033	0.051
Rv1096ko	-0.133	0.232
Rv3684ko	0.141	-0.206
delta_otsA_trehalose	-0.421	-1.034