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 Rv3398c/idsA1

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

	Rv0845/-	Rv3398c/idsA1
Fe_supp_jason_reseq	-0.38	-0.677
low_pH_jason_reseq	0.815	0.694
NO_jason_reseq	-0.41	-0.11
B6_jason_reseq	-0.712	-2.06
MHCII_jason_reseq	-1.227	-2.841
Isoniazid02	0.972	2.012
Rifampicin4	-0.081	-0.403
Ethambutol3	0.472	1.411
Meropenem3	-0.097	-0.255
Vancomycin16	0.204	0.358
Rv2680_day32	-0.313	0.041
H37Rv_KO_MarP	0.141	0.165
hypoxia_3wks	-0.088	0.359
hypoxia_6wks	-0.14	0.748
glycerol	-0.767	-1.229
cholesterol	-0.413	-0.24
AJ	0.0	-1.287
Bibs02	0.947	-0.303
Bibs02c	0.226	-0.762
BL6	-0.073	-0.208
BL6a	0.426	1.373
BXD01	0.572	1.355
BXD010	0.861	1.403
BXD011	0.568	1.139
BXD03	0.445	1.948
BXD04	0.457	1.608
BXD05	-0.095	1.701
BXD06	0.223	1.245
BXD07	0.259	1.105
BXD08	0.392	1.062
BXD09	0.497	1.379
CAST	0.537	-0.302
CCcont	-0.035	0.173
DS01	0.349	0.339
DS02	-0.347	0.876
DS04	0.287	0.698
DS0c	0.321	-1.092
GP01	-0.119	-0.164
GP02	-1.034	0.722
GP0c	-1.132	-1.112
NOD	0.376	-0.07
NZO	1.046	-0.062
PWK	0.192	0.117
H37Rv_KO_CtpC	0.713	2.762
H37Rv_KO_CtpD	0.797	1.542
H37Rv_KO_Rv1272	0.65	2.022
H37Rv_KO_SugABC	0.814	2.161
H37Rv_KO_MbtN	0.723	0.0
Trans05	1.127	0.986
macrophage_unactivated	1.026	1.787
IL1	0.531	1.317
Rapamycin	0.632	1.406
Tcell	0.202	1.16
GMCSF	1.085	1.79
IFNab	0.187	1.427
IFNg	0.732	1.224
IFNg_GMCSF1	0.0	1.694
Rv1432_day32	0.407	0.85
Rv1565c_day32	0.379	1.591
secA2_input	-0.369	0.0
delta_Rv3594	-0.174	-0.436
delta_Rv3717	-0.656	-1.081
delta_Rv3811	0.171	-0.998
delta_Rv0954	0.213	-0.585
PonA1	-0.365	0.275
EccD1_KO	0.763	-0.678
EspI_KO	0.63	0.61
PE35_KO	0.333	0.624
PPE68_KO	0.288	1.328
glycerol2	0.025	-1.327
lignocerate	-0.15	-1.122
oleate	0.364	0.22
phosphatidylcholine	0.025	-0.896
acetate	-0.323	-1.287
glucAc	-0.577	-1.381
Rv0950ko	0.033	-0.06
Rv1096ko	-0.133	1.04
Rv3684ko	0.141	-0.4
delta_otsA_trehalose	-0.421	0.58