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 Rv0664/vapB8:

update plot	correlation	link to info on gene
Rv0914c/-	(cc=0.5762)	info on Rv0914c/-
Rv3677c/-	(cc=0.5549)	info on Rv3677c/-
Rv1186c/-	(cc=0.5209)	info on Rv1186c/-
Rv1974/-	(cc=0.501)	info on Rv1974/-
Rv1028c/kdpD	(cc=0.5004)	info on Rv1028c/kdpD
Rv1377c/-	(cc=0.4956)	info on Rv1377c/-
Rv0379/secE2	(cc=0.4904)	info on Rv0379/secE2
Rv2919c/glnB	(cc=0.4875)	info on Rv2919c/glnB
Rv1718/-	(cc=0.4836)	info on Rv1718/-
Rv3081/-	(cc=0.4808)	info on Rv3081/-

Correlation of Rv0664/vapB8 with Rv1377c/-

Normalized LFCs for Rv0664/vapB8:
(description and provenance of datasets)

	Rv0664/vapB8	Rv1377c/-
Fe_supp_jason_reseq	1.137	1.35
low_pH_jason_reseq	2.454	-0.952
NO_jason_reseq	0.89	0.042
B6_jason_reseq	1.504	-0.018
MHCII_jason_reseq	0.379	0.206
Isoniazid02	-0.674	0.658
Rifampicin4	-0.853	0.81
Ethambutol3	-0.79	0.209
Meropenem3	-0.579	0.987
Vancomycin16	-0.231	1.035
Rv2680_day32	-3.466	0.142
H37Rv_KO_MarP	0.569	0.323
hypoxia_3wks	-1.639	-0.574
hypoxia_6wks	1.374	-0.819
glycerol	-0.12	0.496
cholesterol	0.76	0.857
AJ	0.012	0.032
Bibs02	1.628	0.617
Bibs02c	-0.324	-0.462
BL6	-0.31	-0.465
BL6a	-0.653	0.0
BXD01	-0.555	0.335
BXD010	-0.555	0.071
BXD011	-1.439	-0.185
BXD03	-2.585	0.278
BXD04	-2.292	-0.524
BXD05	-1.153	-0.5
BXD06	-1.033	0.083
BXD07	-1.003	0.14
BXD08	-1.111	0.281
BXD09	-1.236	-0.18
CAST	0.479	0.554
CCcont	-1.584	0.021
DS01	1.48	-0.481
DS02	0.373	0.734
DS04	1.131	0.645
DS0c	1.703	0.903
GP01	-1.047	0.576
GP02	-0.43	-0.276
GP0c	-0.104	0.632
NOD	0.368	1.84
NZO	-1.143	0.879
PWK	-0.358	0.122
H37Rv_KO_CtpC	-4.787	-0.759
H37Rv_KO_CtpD	-3.036	-1.164
H37Rv_KO_Rv1272	-2.03	-1.011
H37Rv_KO_SugABC	-0.216	-0.543
H37Rv_KO_MbtN	-3.037	-1.402
Trans05	-2.125	-0.243
macrophage_unactivated	-1.461	-0.439
IL1	-1.071	0.492
Rapamycin	0.552	0.479
Tcell	0.437	0.345
GMCSF	-0.428	0.198
IFNab	0.71	0.414
IFNg	2.638	0.257
IFNg_GMCSF1	0.273	-0.176
Rv1432_day32	-1.605	-0.437
Rv1565c_day32	0.0	-0.34
secA2_input	-2.423	0.163
delta_Rv3594	1.643	0.502
delta_Rv3717	-0.065	0.098
delta_Rv3811	0.11	0.138
delta_Rv0954	0.244	0.928
PonA1	2.248	1.019
EccD1_KO	1.644	0.76
EspI_KO	0.987	-0.627
PE35_KO	0.866	0.35
PPE68_KO	0.675	0.195
glycerol2	0.062	0.326
lignocerate	0.784	0.878
oleate	-2.185	-0.535
phosphatidylcholine	0.861	1.2
acetate	2.534	1.406
glucAc	1.623	1.266
Rv0950ko	0.971	1.381
Rv1096ko	2.735	0.811
Rv3684ko	2.338	0.881
delta_otsA_trehalose	1.323	0.974