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 Rv3758c/proV:

update plot	correlation	link to info on gene
Rv1087/PE_PGRS21	(cc=0.4767)	info on Rv1087/PE_PGRS21
Rv1044/-	(cc=0.4633)	info on Rv1044/-
Rv2841c/nusA	(cc=0.4231)	info on Rv2841c/nusA
Rv2873/mpt83	(cc=0.4213)	info on Rv2873/mpt83
Rv1948c/-	(cc=0.409)	info on Rv1948c/-
Rv2850c/-	(cc=0.4029)	info on Rv2850c/-
Rv3417c/groEL1	(cc=0.3974)	info on Rv3417c/groEL1
Rv1091/PE_PGRS22	(cc=0.3933)	info on Rv1091/PE_PGRS22
Rv1676/-	(cc=0.3922)	info on Rv1676/-
Rv1597/-	(cc=0.386)	info on Rv1597/-

Correlation of Rv3758c/proV with Rv2850c/-

Normalized LFCs for Rv3758c/proV:
(description and provenance of datasets)

	Rv3758c/proV	Rv2850c/-
Fe_supp_jason_reseq	0.096	-0.344
low_pH_jason_reseq	-0.393	-0.979
NO_jason_reseq	0.312	-0.572
B6_jason_reseq	0.084	-0.691
MHCII_jason_reseq	-0.766	0.596
Isoniazid02	0.023	-0.519
Rifampicin4	-0.376	0.357
Ethambutol3	0.117	-0.344
Meropenem3	0.188	-0.255
Vancomycin16	1.263	0.302
Rv2680_day32	0.617	0.464
H37Rv_KO_MarP	0.711	0.0
hypoxia_3wks	0.056	-1.005
hypoxia_6wks	0.198	-0.827
glycerol	0.671	1.409
cholesterol	0.178	0.721
AJ	0.108	0.197
Bibs02	0.544	0.272
Bibs02c	0.677	-0.076
BL6	0.634	0.446
BL6a	-0.023	-0.515
BXD01	0.241	1.279
BXD010	0.502	0.565
BXD011	-0.178	-0.069
BXD03	-0.364	-1.105
BXD04	-0.867	-0.067
BXD05	0.047	-0.512
BXD06	-0.065	0.371
BXD07	0.048	0.44
BXD08	0.542	0.37
BXD09	-0.235	-0.334
CAST	-0.14	-0.399
CCcont	0.391	-0.027
DS01	0.216	-0.219
DS02	0.444	-0.331
DS04	0.76	0.856
DS0c	0.919	-0.244
GP01	1.102	0.162
GP02	-0.083	0.878
GP0c	0.541	0.362
NOD	-0.605	-0.164
NZO	-0.631	-1.276
PWK	0.283	0.199
H37Rv_KO_CtpC	-0.019	-0.422
H37Rv_KO_CtpD	1.574	1.337
H37Rv_KO_Rv1272	0.553	0.777
H37Rv_KO_SugABC	0.111	0.302
H37Rv_KO_MbtN	0.942	-0.925
Trans05	0.228	-0.147
macrophage_unactivated	-0.098	-0.17
IL1	-0.967	-1.077
Rapamycin	-0.344	-1.329
Tcell	-1.062	0.0
GMCSF	-0.082	-0.449
IFNab	-0.596	-1.533
IFNg	-0.433	-0.454
IFNg_GMCSF1	-0.198	-0.726
Rv1432_day32	-0.679	0.55
Rv1565c_day32	-0.122	0.673
secA2_input	0.26	-0.045
delta_Rv3594	0.407	0.439
delta_Rv3717	0.079	0.23
delta_Rv3811	0.271	0.208
delta_Rv0954	-0.152	0.659
PonA1	0.055	-0.566
EccD1_KO	0.069	-0.865
EspI_KO	-0.933	-0.975
PE35_KO	0.061	-1.178
PPE68_KO	-0.205	-1.648
glycerol2	0.212	0.717
lignocerate	0.133	0.746
oleate	0.14	0.618
phosphatidylcholine	-0.015	0.99
acetate	0.268	0.103
glucAc	-0.024	0.146
Rv0950ko	0.199	0.769
Rv1096ko	0.576	0.829
Rv3684ko	0.046	0.223
delta_otsA_trehalose	0.803	0.0