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 Rv0160c/PE4:

update plot	correlation	link to info on gene
Rv0194/-	(cc=0.6467)	info on Rv0194/-
Rv0456B/mazE1	(cc=0.6442)	info on Rv0456B/mazE1
Rv0342/iniA	(cc=0.6199)	info on Rv0342/iniA
Rv3508/PE_PGRS54	(cc=0.6172)	info on Rv3508/PE_PGRS54
Rv0975c/fadE13	(cc=0.5938)	info on Rv0975c/fadE13
Rv2390c/-	(cc=0.5862)	info on Rv2390c/-
Rv0115/hddA	(cc=0.5854)	info on Rv0115/hddA
Rv2352c/PPE38	(cc=0.5845)	info on Rv2352c/PPE38
Rv3191c/-	(cc=0.5738)	info on Rv3191c/-
Rv0073/-	(cc=0.5614)	info on Rv0073/-

Correlation of Rv0160c/PE4 with Rv0456B/mazE1

Normalized LFCs for Rv0160c/PE4:
(description and provenance of datasets)

	Rv0160c/PE4	Rv0456B/mazE1
Fe_supp_jason_reseq	0.011	0.534
low_pH_jason_reseq	-0.07	-0.154
NO_jason_reseq	-0.11	0.126
B6_jason_reseq	0.416	0.382
MHCII_jason_reseq	0.302	0.572
Isoniazid02	-1.8	-2.183
Rifampicin4	0.208	0.471
Ethambutol3	-0.931	-1.78
Meropenem3	-1.482	-1.887
Vancomycin16	-0.836	-0.796
Rv2680_day32	-0.088	0.44
H37Rv_KO_MarP	0.748	-0.282
hypoxia_3wks	-0.191	0.0
hypoxia_6wks	-0.175	-0.186
glycerol	0.471	1.014
cholesterol	0.477	0.351
AJ	0.062	-0.773
Bibs02	0.886	0.91
Bibs02c	0.584	0.929
BL6	0.188	0.719
BL6a	0.375	1.343
BXD01	-0.029	0.413
BXD010	-0.023	0.671
BXD011	0.241	0.891
BXD03	0.15	-0.017
BXD04	0.354	0.208
BXD05	0.048	1.222
BXD06	0.316	0.799
BXD07	0.182	0.53
BXD08	0.338	0.189
BXD09	0.032	0.657
CAST	0.427	1.068
CCcont	-0.148	0.52
DS01	0.281	0.664
DS02	0.584	0.912
DS04	0.126	0.899
DS0c	-0.141	1.276
GP01	0.358	0.382
GP02	1.382	0.811
GP0c	-0.229	0.062
NOD	0.364	0.962
NZO	0.887	0.152
PWK	0.193	-0.213
H37Rv_KO_CtpC	0.447	0.298
H37Rv_KO_CtpD	1.091	0.479
H37Rv_KO_Rv1272	1.015	0.329
H37Rv_KO_SugABC	0.612	0.156
H37Rv_KO_MbtN	0.485	0.13
Trans05	0.807	0.621
macrophage_unactivated	-0.354	0.59
IL1	0.098	0.688
Rapamycin	0.239	1.154
Tcell	-0.248	0.218
GMCSF	-0.09	-0.378
IFNab	0.039	0.438
IFNg	0.294	0.096
IFNg_GMCSF1	0.085	1.477
Rv1432_day32	0.339	0.391
Rv1565c_day32	0.458	1.046
secA2_input	-0.333	-0.139
delta_Rv3594	-0.099	-0.473
delta_Rv3717	-0.239	-0.406
delta_Rv3811	-0.223	-0.352
delta_Rv0954	0.358	-0.279
PonA1	0.126	0.211
EccD1_KO	-0.444	-0.816
EspI_KO	0.074	-0.57
PE35_KO	-0.446	-0.193
PPE68_KO	-0.221	-0.576
glycerol2	0.276	0.154
lignocerate	0.284	0.1
oleate	0.216	-0.16
phosphatidylcholine	0.387	0.123
acetate	0.083	-0.332
glucAc	0.264	0.019
Rv0950ko	0.479	0.419
Rv1096ko	-0.13	-0.332
Rv3684ko	0.134	0.495
delta_otsA_trehalose	0.026	-0.366