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 Rv2137c/-

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

	Rv0845/-	Rv2137c/-
Fe_supp_jason_reseq	-0.38	0.605
low_pH_jason_reseq	0.815	0.341
NO_jason_reseq	-0.41	0.081
B6_jason_reseq	-0.712	0.371
MHCII_jason_reseq	-1.227	-0.073
Isoniazid02	0.972	1.323
Rifampicin4	-0.081	0.179
Ethambutol3	0.472	0.45
Meropenem3	-0.097	0.155
Vancomycin16	0.204	-0.316
Rv2680_day32	-0.313	0.256
H37Rv_KO_MarP	0.141	-0.119
hypoxia_3wks	-0.088	-0.821
hypoxia_6wks	-0.14	-0.512
glycerol	-0.767	-1.684
cholesterol	-0.413	0.329
AJ	0.0	0.511
Bibs02	0.947	0.523
Bibs02c	0.226	0.243
BL6	-0.073	0.51
BL6a	0.426	1.091
BXD01	0.572	1.24
BXD010	0.861	0.957
BXD011	0.568	0.047
BXD03	0.445	0.213
BXD04	0.457	0.363
BXD05	-0.095	0.013
BXD06	0.223	0.619
BXD07	0.259	0.511
BXD08	0.392	0.473
BXD09	0.497	0.5
CAST	0.537	-0.452
CCcont	-0.035	0.48
DS01	0.349	0.792
DS02	-0.347	-0.214
DS04	0.287	1.788
DS0c	0.321	0.8
GP01	-0.119	0.063
GP02	-1.034	-1.23
GP0c	-1.132	-1.568
NOD	0.376	0.443
NZO	1.046	0.513
PWK	0.192	0.0
H37Rv_KO_CtpC	0.713	0.599
H37Rv_KO_CtpD	0.797	-0.417
H37Rv_KO_Rv1272	0.65	1.31
H37Rv_KO_SugABC	0.814	1.703
H37Rv_KO_MbtN	0.723	0.871
Trans05	1.127	-0.17
macrophage_unactivated	1.026	0.436
IL1	0.531	2.011
Rapamycin	0.632	1.449
Tcell	0.202	2.597
GMCSF	1.085	-0.562
IFNab	0.187	0.054
IFNg	0.732	0.54
IFNg_GMCSF1	0.0	-0.606
Rv1432_day32	0.407	-0.683
Rv1565c_day32	0.379	0.0
secA2_input	-0.369	-0.645
delta_Rv3594	-0.174	-0.087
delta_Rv3717	-0.656	-0.495
delta_Rv3811	0.171	-0.32
delta_Rv0954	0.213	0.216
PonA1	-0.365	0.675
EccD1_KO	0.763	0.178
EspI_KO	0.63	0.0
PE35_KO	0.333	0.709
PPE68_KO	0.288	1.229
glycerol2	0.025	0.413
lignocerate	-0.15	0.658
oleate	0.364	-0.086
phosphatidylcholine	0.025	0.807
acetate	-0.323	-0.843
glucAc	-0.577	-0.366
Rv0950ko	0.033	-0.302
Rv1096ko	-0.133	-0.552
Rv3684ko	0.141	0.239
delta_otsA_trehalose	-0.421	-0.627