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 Rv2950c/fadD29:

update plot	correlation	link to info on gene
Rv0755c/PPE12	(cc=0.4903)	info on Rv0755c/PPE12
Rv1087A/-	(cc=0.4849)	info on Rv1087A/-
Rv3697c/vapC48	(cc=0.4755)	info on Rv3697c/vapC48
Rv2267c/-	(cc=0.449)	info on Rv2267c/-
Rv3117/cysA3	(cc=0.4483)	info on Rv3117/cysA3
Rv2119/-	(cc=0.4448)	info on Rv2119/-
Rv1117/-	(cc=0.4345)	info on Rv1117/-
Rv1646/PE17	(cc=0.4304)	info on Rv1646/PE17
Rv1352/-	(cc=0.422)	info on Rv1352/-
Rv2957/-	(cc=0.4186)	info on Rv2957/-

Correlation of Rv2950c/fadD29 with Rv0755c/PPE12

Normalized LFCs for Rv2950c/fadD29:
(description and provenance of datasets)

	Rv2950c/fadD29	Rv0755c/PPE12
Fe_supp_jason_reseq	0.824	-0.553
low_pH_jason_reseq	-0.395	-0.634
NO_jason_reseq	0.383	-0.179
B6_jason_reseq	0.739	-0.128
MHCII_jason_reseq	0.107	1.052
Isoniazid02	-0.22	-0.316
Rifampicin4	0.449	-0.092
Ethambutol3	-0.175	0.585
Meropenem3	-0.048	-0.307
Vancomycin16	0.0	0.34
Rv2680_day32	0.06	-0.516
H37Rv_KO_MarP	-0.199	0.628
hypoxia_3wks	-0.478	-0.104
hypoxia_6wks	-0.998	-0.34
glycerol	-0.579	0.353
cholesterol	-0.355	-0.482
AJ	-0.111	0.785
Bibs02	0.147	0.832
Bibs02c	0.168	1.028
BL6	0.169	-0.518
BL6a	0.185	0.528
BXD01	0.132	0.207
BXD010	0.302	0.879
BXD011	0.228	1.712
BXD03	0.304	0.075
BXD04	0.157	-0.176
BXD05	0.006	0.491
BXD06	-0.07	0.025
BXD07	-0.113	0.052
BXD08	-0.018	-0.189
BXD09	0.051	-0.14
CAST	0.878	0.402
CCcont	0.075	0.083
DS01	0.289	0.799
DS02	0.05	1.068
DS04	0.035	0.682
DS0c	0.118	0.933
GP01	-0.527	-0.66
GP02	-0.419	-0.299
GP0c	-0.81	-0.654
NOD	-0.459	0.76
NZO	-0.454	0.858
PWK	0.84	0.689
H37Rv_KO_CtpC	0.608	1.014
H37Rv_KO_CtpD	0.854	1.246
H37Rv_KO_Rv1272	0.23	0.417
H37Rv_KO_SugABC	0.13	-0.078
H37Rv_KO_MbtN	0.39	-0.081
Trans05	-0.062	0.29
macrophage_unactivated	-0.243	-0.915
IL1	-0.08	-0.24
Rapamycin	-1.004	-1.194
Tcell	0.681	-0.355
GMCSF	-0.863	-0.681
IFNab	-0.964	-1.611
IFNg	-0.037	-0.861
IFNg_GMCSF1	-0.619	-0.811
Rv1432_day32	-1.253	-0.206
Rv1565c_day32	-0.371	-0.486
secA2_input	-0.16	-0.65
delta_Rv3594	0.012	0.038
delta_Rv3717	-0.49	-0.886
delta_Rv3811	0.137	-0.507
delta_Rv0954	0.119	0.096
PonA1	-0.225	-0.719
EccD1_KO	0.286	0.444
EspI_KO	0.619	0.935
PE35_KO	0.303	0.318
PPE68_KO	0.467	0.432
glycerol2	0.39	0.347
lignocerate	0.751	0.347
oleate	-0.026	-0.065
phosphatidylcholine	0.515	0.643
acetate	-0.015	0.181
glucAc	0.104	-0.024
Rv0950ko	-0.157	0.223
Rv1096ko	-0.688	-0.483
Rv3684ko	-0.603	-0.085
delta_otsA_trehalose	-0.315	0.345