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 Rv2808/-:

update plot	correlation	link to info on gene
Rv3697c/vapC48	(cc=0.5575)	info on Rv3697c/vapC48
Rv2647/-	(cc=0.5553)	info on Rv2647/-
Rv1205/-	(cc=0.5379)	info on Rv1205/-
Rv3018c/PPE46	(cc=0.5325)	info on Rv3018c/PPE46
Rv1260/-	(cc=0.5176)	info on Rv1260/-
Rv1646/PE17	(cc=0.5092)	info on Rv1646/PE17
Rv1206/fadD6	(cc=0.4987)	info on Rv1206/fadD6
Rv0755c/PPE12	(cc=0.4821)	info on Rv0755c/PPE12
Rv0554/bpoC	(cc=0.469)	info on Rv0554/bpoC
Rv2941/fadD28	(cc=0.4645)	info on Rv2941/fadD28

Correlation of Rv2808/- with Rv3697c/vapC48

Normalized LFCs for Rv2808/-:
(description and provenance of datasets)

	Rv2808/-	Rv3697c/vapC48
Fe_supp_jason_reseq	0.766	1.004
low_pH_jason_reseq	-0.124	0.248
NO_jason_reseq	0.69	0.257
B6_jason_reseq	2.801	0.432
MHCII_jason_reseq	1.22	0.625
Isoniazid02	0.0	0.127
Rifampicin4	0.791	0.986
Ethambutol3	0.427	0.259
Meropenem3	0.444	0.623
Vancomycin16	0.775	0.849
Rv2680_day32	-3.002	-0.608
H37Rv_KO_MarP	-0.114	0.141
hypoxia_3wks	-0.825	-0.187
hypoxia_6wks	0.023	0.599
glycerol	-0.066	-1.059
cholesterol	0.379	-0.18
AJ	1.128	1.141
Bibs02	0.642	0.148
Bibs02c	-0.103	1.023
BL6	-0.255	0.43
BL6a	-0.502	0.946
BXD01	0.222	1.006
BXD010	0.472	0.63
BXD011	0.719	0.497
BXD03	0.266	0.265
BXD04	-0.061	0.173
BXD05	-0.851	0.037
BXD06	0.246	0.352
BXD07	0.138	0.319
BXD08	0.66	0.723
BXD09	-0.314	0.615
CAST	1.565	0.929
CCcont	0.244	0.578
DS01	0.589	0.7
DS02	1.175	1.311
DS04	0.822	0.926
DS0c	0.848	1.073
GP01	-0.654	0.32
GP02	-0.764	1.123
GP0c	-0.577	0.655
NOD	2.481	1.15
NZO	1.097	0.351
PWK	0.334	1.223
H37Rv_KO_CtpC	0.976	1.453
H37Rv_KO_CtpD	-1.163	0.915
H37Rv_KO_Rv1272	0.045	-0.06
H37Rv_KO_SugABC	-0.929	1.48
H37Rv_KO_MbtN	0.264	0.337
Trans05	-1.679	1.053
macrophage_unactivated	-0.259	-0.675
IL1	-3.168	-1.053
Rapamycin	-0.948	-1.789
Tcell	-0.404	-0.534
GMCSF	-1.853	-1.595
IFNab	-1.808	-0.98
IFNg	-2.638	-0.676
IFNg_GMCSF1	-1.345	-1.254
Rv1432_day32	-1.675	-1.395
Rv1565c_day32	-1.139	0.684
secA2_input	-0.504	-0.368
delta_Rv3594	-0.066	0.021
delta_Rv3717	-1.057	-0.279
delta_Rv3811	-1.034	-0.042
delta_Rv0954	-1.495	-0.239
PonA1	-2.308	-0.059
EccD1_KO	-0.927	-0.576
EspI_KO	-0.091	0.02
PE35_KO	0.359	-0.257
PPE68_KO	-0.544	-0.307
glycerol2	-0.433	0.743
lignocerate	0.145	1.221
oleate	-0.265	0.95
phosphatidylcholine	0.277	1.308
acetate	-0.382	0.329
glucAc	0.088	0.432
Rv0950ko	0.084	1.077
Rv1096ko	-0.262	0.033
Rv3684ko	-0.481	0.701
delta_otsA_trehalose	-2.072	-0.143