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 Rv1740/vapB34:

update plot	correlation	link to info on gene
Rv2268c/cyp128	(cc=0.3936)	info on Rv2268c/cyp128
Rv1718/-	(cc=0.3894)	info on Rv1718/-
Rv3780/-	(cc=0.3799)	info on Rv3780/-
Rv1371/-	(cc=0.3714)	info on Rv1371/-
Rv2896c/-	(cc=0.3707)	info on Rv2896c/-
Rv3453/-	(cc=0.3697)	info on Rv3453/-
Rv2657c/-	(cc=0.3586)	info on Rv2657c/-
Rv0338c/-	(cc=0.3581)	info on Rv0338c/-
Rv0093c/-	(cc=0.3462)	info on Rv0093c/-
Rv1805c/-	(cc=0.3444)	info on Rv1805c/-

Correlation of Rv1740/vapB34 with Rv1718/-

Normalized LFCs for Rv1740/vapB34:
(description and provenance of datasets)

	Rv1740/vapB34	Rv1718/-
Fe_supp_jason_reseq	-0.079	0.308
low_pH_jason_reseq	-0.214	-0.263
NO_jason_reseq	0.648	0.441
B6_jason_reseq	1.395	1.117
MHCII_jason_reseq	0.564	0.368
Isoniazid02	-0.099	0.017
Rifampicin4	0.211	-0.133
Ethambutol3	-0.32	-0.338
Meropenem3	0.436	-0.167
Vancomycin16	0.0	-0.196
Rv2680_day32	-0.116	-1.001
H37Rv_KO_MarP	0.467	-0.048
hypoxia_3wks	-0.726	-1.105
hypoxia_6wks	-0.38	-0.374
glycerol	0.338	0.528
cholesterol	3.968	0.943
AJ	1.321	-0.264
Bibs02	0.134	1.484
Bibs02c	0.43	0.411
BL6	-1.089	-1.198
BL6a	-0.547	-0.349
BXD01	-0.103	-1.54
BXD010	-1.592	0.777
BXD011	-0.661	-1.002
BXD03	-1.379	-1.295
BXD04	2.124	-0.491
BXD05	0.891	-1.649
BXD06	-0.219	-0.683
BXD07	0.608	-0.739
BXD08	0.306	-0.835
BXD09	-0.043	-0.688
CAST	0.964	1.111
CCcont	0.171	-0.466
DS01	-0.072	0.941
DS02	0.843	1.095
DS04	-0.059	0.673
DS0c	1.453	1.259
GP01	-1.007	0.497
GP02	1.771	0.486
GP0c	0.095	-0.801
NOD	1.822	-0.543
NZO	1.779	0.663
PWK	-1.223	-0.361
H37Rv_KO_CtpC	1.307	-0.067
H37Rv_KO_CtpD	1.121	-0.384
H37Rv_KO_Rv1272	0.815	-0.415
H37Rv_KO_SugABC	-1.513	-0.273
H37Rv_KO_MbtN	0.399	-1.666
Trans05	0.947	0.807
macrophage_unactivated	0.382	-0.761
IL1	1.907	0.071
Rapamycin	-0.58	-0.436
Tcell	0.241	-1.447
GMCSF	0.132	-0.269
IFNab	0.505	-0.151
IFNg	1.676	-0.762
IFNg_GMCSF1	-2.212	-0.848
Rv1432_day32	1.37	-0.185
Rv1565c_day32	-1.69	-0.287
secA2_input	0.144	-1.11
delta_Rv3594	1.078	0.211
delta_Rv3717	0.656	-0.473
delta_Rv3811	0.623	-0.269
delta_Rv0954	-0.861	-1.105
PonA1	0.267	-1.477
EccD1_KO	-2.424	0.289
EspI_KO	-0.479	1.802
PE35_KO	0.732	0.916
PPE68_KO	1.315	0.765
glycerol2	0.999	0.534
lignocerate	1.946	1.818
oleate	-2.083	-2.789
phosphatidylcholine	0.744	0.985
acetate	1.696	2.095
glucAc	1.61	1.951
Rv0950ko	0.832	-0.232
Rv1096ko	0.715	0.853
Rv3684ko	0.819	0.174
delta_otsA_trehalose	-0.897	0.363