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 Rv2275/-

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

	Rv0845/-	Rv2275/-
Fe_supp_jason_reseq	-0.38	0.827
low_pH_jason_reseq	0.815	0.617
NO_jason_reseq	-0.41	-0.244
B6_jason_reseq	-0.712	-0.7
MHCII_jason_reseq	-1.227	0.61
Isoniazid02	0.972	0.153
Rifampicin4	-0.081	0.975
Ethambutol3	0.472	0.188
Meropenem3	-0.097	0.352
Vancomycin16	0.204	0.539
Rv2680_day32	-0.313	-0.471
H37Rv_KO_MarP	0.141	0.08
hypoxia_3wks	-0.088	0.128
hypoxia_6wks	-0.14	-0.288
glycerol	-0.767	-0.453
cholesterol	-0.413	0.184
AJ	0.0	0.294
Bibs02	0.947	1.13
Bibs02c	0.226	-0.47
BL6	-0.073	0.864
BL6a	0.426	0.528
BXD01	0.572	1.203
BXD010	0.861	0.816
BXD011	0.568	1.745
BXD03	0.445	1.025
BXD04	0.457	0.0
BXD05	-0.095	0.615
BXD06	0.223	0.39
BXD07	0.259	0.602
BXD08	0.392	0.871
BXD09	0.497	1.087
CAST	0.537	-1.054
CCcont	-0.035	1.179
DS01	0.349	0.503
DS02	-0.347	0.142
DS04	0.287	0.929
DS0c	0.321	-0.231
GP01	-0.119	-0.354
GP02	-1.034	-0.523
GP0c	-1.132	-0.986
NOD	0.376	-0.239
NZO	1.046	1.306
PWK	0.192	-1.232
H37Rv_KO_CtpC	0.713	1.545
H37Rv_KO_CtpD	0.797	1.255
H37Rv_KO_Rv1272	0.65	2.719
H37Rv_KO_SugABC	0.814	2.705
H37Rv_KO_MbtN	0.723	1.924
Trans05	1.127	1.729
macrophage_unactivated	1.026	1.215
IL1	0.531	-0.089
Rapamycin	0.632	1.114
Tcell	0.202	0.873
GMCSF	1.085	0.51
IFNab	0.187	0.088
IFNg	0.732	0.516
IFNg_GMCSF1	0.0	-1.656
Rv1432_day32	0.407	-0.411
Rv1565c_day32	0.379	0.3
secA2_input	-0.369	-1.681
delta_Rv3594	-0.174	-0.725
delta_Rv3717	-0.656	-0.927
delta_Rv3811	0.171	-0.796
delta_Rv0954	0.213	-1.708
PonA1	-0.365	-0.936
EccD1_KO	0.763	2.111
EspI_KO	0.63	1.443
PE35_KO	0.333	1.17
PPE68_KO	0.288	1.872
glycerol2	0.025	0.0
lignocerate	-0.15	0.505
oleate	0.364	0.0
phosphatidylcholine	0.025	0.415
acetate	-0.323	1.014
glucAc	-0.577	0.487
Rv0950ko	0.033	-1.354
Rv1096ko	-0.133	-0.835
Rv3684ko	0.141	-1.179
delta_otsA_trehalose	-0.421	-0.836