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 Rv0827c/kmtR

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

	Rv0845/-	Rv0827c/kmtR
Fe_supp_jason_reseq	-0.38	-2.06
low_pH_jason_reseq	0.815	1.128
NO_jason_reseq	-0.41	-0.942
B6_jason_reseq	-0.712	-2.511
MHCII_jason_reseq	-1.227	-3.0
Isoniazid02	0.972	-1.307
Rifampicin4	-0.081	0.303
Ethambutol3	0.472	-0.845
Meropenem3	-0.097	-1.276
Vancomycin16	0.204	-0.883
Rv2680_day32	-0.313	0.018
H37Rv_KO_MarP	0.141	1.192
hypoxia_3wks	-0.088	-0.694
hypoxia_6wks	-0.14	0.416
glycerol	-0.767	-1.401
cholesterol	-0.413	-0.766
AJ	0.0	0.301
Bibs02	0.947	0.954
Bibs02c	0.226	-0.629
BL6	-0.073	0.837
BL6a	0.426	0.387
BXD01	0.572	0.703
BXD010	0.861	0.131
BXD011	0.568	1.34
BXD03	0.445	-0.25
BXD04	0.457	0.562
BXD05	-0.095	0.499
BXD06	0.223	0.849
BXD07	0.259	0.96
BXD08	0.392	0.656
BXD09	0.497	1.112
CAST	0.537	0.48
CCcont	-0.035	1.683
DS01	0.349	-1.372
DS02	-0.347	0.9
DS04	0.287	0.304
DS0c	0.321	0.368
GP01	-0.119	-1.978
GP02	-1.034	-1.667
GP0c	-1.132	-2.605
NOD	0.376	0.068
NZO	1.046	0.63
PWK	0.192	0.145
H37Rv_KO_CtpC	0.713	3.761
H37Rv_KO_CtpD	0.797	1.266
H37Rv_KO_Rv1272	0.65	1.942
H37Rv_KO_SugABC	0.814	-0.63
H37Rv_KO_MbtN	0.723	-0.289
Trans05	1.127	1.185
macrophage_unactivated	1.026	1.288
IL1	0.531	-0.581
Rapamycin	0.632	0.347
Tcell	0.202	1.58
GMCSF	1.085	0.333
IFNab	0.187	1.176
IFNg	0.732	1.539
IFNg_GMCSF1	0.0	-0.962
Rv1432_day32	0.407	-0.763
Rv1565c_day32	0.379	-0.134
secA2_input	-0.369	0.244
delta_Rv3594	-0.174	-0.85
delta_Rv3717	-0.656	-1.097
delta_Rv3811	0.171	-0.233
delta_Rv0954	0.213	1.264
PonA1	-0.365	1.221
EccD1_KO	0.763	0.99
EspI_KO	0.63	1.526
PE35_KO	0.333	0.12
PPE68_KO	0.288	0.739
glycerol2	0.025	-1.473
lignocerate	-0.15	-0.48
oleate	0.364	-1.859
phosphatidylcholine	0.025	-0.866
acetate	-0.323	-0.048
glucAc	-0.577	0.626
Rv0950ko	0.033	0.669
Rv1096ko	-0.133	-0.106
Rv3684ko	0.141	0.681
delta_otsA_trehalose	-0.421	1.027