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 Rv3039c/echA17:

update plot	correlation	link to info on gene
Rv0781/ptrBa	(cc=0.4406)	info on Rv0781/ptrBa
Rv0427c/xthA	(cc=0.4258)	info on Rv0427c/xthA
Rv0948c/-	(cc=0.423)	info on Rv0948c/-
Rv1114/vapC32	(cc=0.4088)	info on Rv1114/vapC32
Rv2767c/-	(cc=0.4001)	info on Rv2767c/-
Rv2290/lppO	(cc=0.3994)	info on Rv2290/lppO
Rv1869c/-	(cc=0.3929)	info on Rv1869c/-
Rv1233c/-	(cc=0.3912)	info on Rv1233c/-
Rv0553/menC	(cc=0.3836)	info on Rv0553/menC
Rv3189/-	(cc=0.3816)	info on Rv3189/-

Correlation of Rv3039c/echA17 with Rv1233c/-

Normalized LFCs for Rv3039c/echA17:
(description and provenance of datasets)

	Rv3039c/echA17	Rv1233c/-
Fe_supp_jason_reseq	-0.923	-0.109
low_pH_jason_reseq	-2.652	-0.905
NO_jason_reseq	0.457	0.257
B6_jason_reseq	0.461	-0.581
MHCII_jason_reseq	1.475	-0.406
Isoniazid02	0.767	0.604
Rifampicin4	-1.202	-0.162
Ethambutol3	0.0	-0.396
Meropenem3	0.146	1.559
Vancomycin16	-0.231	-0.451
Rv2680_day32	2.205	0.18
H37Rv_KO_MarP	0.363	1.043
hypoxia_3wks	-0.128	-0.171
hypoxia_6wks	0.37	-0.773
glycerol	-1.24	0.072
cholesterol	0.233	0.419
AJ	0.938	-0.313
Bibs02	-1.325	-0.283
Bibs02c	1.69	0.518
BL6	0.321	-0.234
BL6a	2.177	0.433
BXD01	0.242	0.455
BXD010	1.779	0.788
BXD011	1.263	0.738
BXD03	0.0	-0.012
BXD04	0.199	0.107
BXD05	1.773	0.487
BXD06	0.824	0.76
BXD07	1.209	0.037
BXD08	0.71	0.19
BXD09	1.425	0.223
CAST	0.254	-0.285
CCcont	0.797	0.359
DS01	1.42	0.517
DS02	-0.572	-0.734
DS04	-1.093	0.261
DS0c	0.605	0.344
GP01	-1.322	0.141
GP02	-1.114	0.362
GP0c	-1.19	-0.918
NOD	-0.508	0.303
NZO	0.767	-0.438
PWK	-0.918	-0.304
H37Rv_KO_CtpC	-1.729	0.447
H37Rv_KO_CtpD	-1.348	0.392
H37Rv_KO_Rv1272	-1.747	0.145
H37Rv_KO_SugABC	-0.978	1.158
H37Rv_KO_MbtN	-0.747	-0.31
Trans05	-1.619	-0.559
macrophage_unactivated	-0.133	0.473
IL1	0.356	0.786
Rapamycin	1.126	0.0
Tcell	-0.818	0.306
GMCSF	0.705	0.805
IFNab	0.305	0.109
IFNg	0.665	0.0
IFNg_GMCSF1	0.129	0.33
Rv1432_day32	0.0	0.571
Rv1565c_day32	1.151	0.539
secA2_input	1.368	0.188
delta_Rv3594	1.127	0.62
delta_Rv3717	0.707	0.877
delta_Rv3811	1.903	0.668
delta_Rv0954	0.398	1.05
PonA1	-0.56	1.273
EccD1_KO	1.23	0.72
EspI_KO	1.914	1.192
PE35_KO	0.58	0.732
PPE68_KO	1.814	0.768
glycerol2	-0.761	-0.482
lignocerate	-0.874	-0.234
oleate	-0.89	0.306
phosphatidylcholine	-1.14	0.018
acetate	-1.807	-0.702
glucAc	-0.949	0.067
Rv0950ko	-0.112	0.166
Rv1096ko	0.323	0.133
Rv3684ko	0.35	-0.462
delta_otsA_trehalose	0.322	0.573