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 Rv3697c/vapC48:

update plot	correlation	link to info on gene
Rv2841c/nusA	(cc=0.6194)	info on Rv2841c/nusA
Rv3749c/-	(cc=0.6188)	info on Rv3749c/-
Rv3142c/-	(cc=0.6004)	info on Rv3142c/-
Rv0515/-	(cc=0.588)	info on Rv0515/-
Rv2647/-	(cc=0.5784)	info on Rv2647/-
Rv3018c/PPE46	(cc=0.575)	info on Rv3018c/PPE46
Rv1913/-	(cc=0.5661)	info on Rv1913/-
Rv2808/-	(cc=0.5575)	info on Rv2808/-
Rv2105/-	(cc=0.5507)	info on Rv2105/-
Rv0336/-	(cc=0.536)	info on Rv0336/-

Correlation of Rv3697c/vapC48 with Rv1913/-

Normalized LFCs for Rv3697c/vapC48:
(description and provenance of datasets)

	Rv3697c/vapC48	Rv1913/-
Fe_supp_jason_reseq	1.004	1.913
low_pH_jason_reseq	0.248	0.952
NO_jason_reseq	0.257	0.583
B6_jason_reseq	0.432	-0.571
MHCII_jason_reseq	0.625	0.457
Isoniazid02	0.127	-0.116
Rifampicin4	0.986	0.203
Ethambutol3	0.259	0.035
Meropenem3	0.623	-0.236
Vancomycin16	0.849	-0.212
Rv2680_day32	-0.608	0.985
H37Rv_KO_MarP	0.141	-0.797
hypoxia_3wks	-0.187	0.327
hypoxia_6wks	0.599	2.543
glycerol	-1.059	-0.629
cholesterol	-0.18	-1.144
AJ	1.141	-0.876
Bibs02	0.148	-2.188
Bibs02c	1.023	-1.725
BL6	0.43	0.896
BL6a	0.946	-0.032
BXD01	1.006	1.136
BXD010	0.63	-0.455
BXD011	0.497	2.06
BXD03	0.265	0.374
BXD04	0.173	0.216
BXD05	0.037	0.68
BXD06	0.352	1.098
BXD07	0.319	0.752
BXD08	0.723	-0.414
BXD09	0.615	0.815
CAST	0.929	0.464
CCcont	0.578	0.694
DS01	0.7	-0.406
DS02	1.311	-0.217
DS04	0.926	0.204
DS0c	1.073	-0.585
GP01	0.32	0.499
GP02	1.123	0.468
GP0c	0.655	-0.432
NOD	1.15	-1.175
NZO	0.351	-1.383
PWK	1.223	-0.23
H37Rv_KO_CtpC	1.453	0.805
H37Rv_KO_CtpD	0.915	-0.316
H37Rv_KO_Rv1272	-0.06	2.984
H37Rv_KO_SugABC	1.48	2.071
H37Rv_KO_MbtN	0.337	0.56
Trans05	1.053	1.699
macrophage_unactivated	-0.675	-0.802
IL1	-1.053	-6.0
Rapamycin	-1.789	-6.0
Tcell	-0.534	4.027
GMCSF	-1.595	-6.0
IFNab	-0.98	-6.0
IFNg	-0.676	-6.0
IFNg_GMCSF1	-1.254	-6.0
Rv1432_day32	-1.395	-0.897
Rv1565c_day32	0.684	0.28
secA2_input	-0.368	-0.848
delta_Rv3594	0.021	0.217
delta_Rv3717	-0.279	0.836
delta_Rv3811	-0.042	-0.125
delta_Rv0954	-0.239	-0.501
PonA1	-0.059	-0.291
EccD1_KO	-0.576	-0.872
EspI_KO	0.02	-1.366
PE35_KO	-0.257	-0.893
PPE68_KO	-0.307	-0.979
glycerol2	0.743	0.963
lignocerate	1.221	1.388
oleate	0.95	-0.22
phosphatidylcholine	1.308	1.004
acetate	0.329	1.142
glucAc	0.432	1.034
Rv0950ko	1.077	0.715
Rv1096ko	0.033	-0.407
Rv3684ko	0.701	0.36
delta_otsA_trehalose	-0.143	1.073