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 Rv2657c/-

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

	Rv1740/vapB34	Rv2657c/-
Fe_supp_jason_reseq	-0.079	-2.325
low_pH_jason_reseq	-0.214	0.952
NO_jason_reseq	0.648	0.158
B6_jason_reseq	1.395	-1.935
MHCII_jason_reseq	0.564	0.311
Isoniazid02	-0.099	0.146
Rifampicin4	0.211	0.921
Ethambutol3	-0.32	0.837
Meropenem3	0.436	0.085
Vancomycin16	0.0	0.215
Rv2680_day32	-0.116	-1.395
H37Rv_KO_MarP	0.467	0.339
hypoxia_3wks	-0.726	-0.594
hypoxia_6wks	-0.38	1.608
glycerol	0.338	0.304
cholesterol	3.968	0.346
AJ	1.321	0.694
Bibs02	0.134	-1.79
Bibs02c	0.43	-1.867
BL6	-1.089	-1.181
BL6a	-0.547	-2.088
BXD01	-0.103	-1.591
BXD010	-1.592	-2.092
BXD011	-0.661	-0.905
BXD03	-1.379	-2.829
BXD04	2.124	-0.559
BXD05	0.891	-1.989
BXD06	-0.219	-2.273
BXD07	0.608	-2.128
BXD08	0.306	-0.631
BXD09	-0.043	-1.922
CAST	0.964	0.262
CCcont	0.171	-0.408
DS01	-0.072	0.313
DS02	0.843	0.288
DS04	-0.059	-0.014
DS0c	1.453	-1.078
GP01	-1.007	-1.459
GP02	1.771	-0.8
GP0c	0.095	-0.676
NOD	1.822	0.298
NZO	1.779	0.699
PWK	-1.223	-0.33
H37Rv_KO_CtpC	1.307	0.012
H37Rv_KO_CtpD	1.121	-0.519
H37Rv_KO_Rv1272	0.815	-0.061
H37Rv_KO_SugABC	-1.513	-1.618
H37Rv_KO_MbtN	0.399	0.291
Trans05	0.947	0.438
macrophage_unactivated	0.382	-0.622
IL1	1.907	-3.275
Rapamycin	-0.58	-2.142
Tcell	0.241	-0.834
GMCSF	0.132	-0.623
IFNab	0.505	-1.357
IFNg	1.676	-2.413
IFNg_GMCSF1	-2.212	-0.87
Rv1432_day32	1.37	0.0
Rv1565c_day32	-1.69	-2.316
secA2_input	0.144	0.0
delta_Rv3594	1.078	0.818
delta_Rv3717	0.656	1.414
delta_Rv3811	0.623	2.207
delta_Rv0954	-0.861	0.649
PonA1	0.267	0.789
EccD1_KO	-2.424	-0.194
EspI_KO	-0.479	-0.168
PE35_KO	0.732	0.796
PPE68_KO	1.315	1.606
glycerol2	0.999	2.168
lignocerate	1.946	3.225
oleate	-2.083	-1.759
phosphatidylcholine	0.744	2.37
acetate	1.696	3.182
glucAc	1.61	2.583
Rv0950ko	0.832	0.127
Rv1096ko	0.715	-1.158
Rv3684ko	0.819	0.881
delta_otsA_trehalose	-0.897	-1.701