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 Rv2873/mpt83

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

	Rv3758c/proV	Rv2873/mpt83
Fe_supp_jason_reseq	0.096	-0.467
low_pH_jason_reseq	-0.393	-0.892
NO_jason_reseq	0.312	-0.021
B6_jason_reseq	0.084	-0.028
MHCII_jason_reseq	-0.766	-0.9
Isoniazid02	0.023	0.137
Rifampicin4	-0.376	0.024
Ethambutol3	0.117	0.323
Meropenem3	0.188	1.144
Vancomycin16	1.263	0.138
Rv2680_day32	0.617	0.296
H37Rv_KO_MarP	0.711	0.095
hypoxia_3wks	0.056	-0.207
hypoxia_6wks	0.198	0.157
glycerol	0.671	-0.149
cholesterol	0.178	0.86
AJ	0.108	-0.055
Bibs02	0.544	0.232
Bibs02c	0.677	0.065
BL6	0.634	-0.458
BL6a	-0.023	-0.453
BXD01	0.241	-0.476
BXD010	0.502	0.03
BXD011	-0.178	-0.073
BXD03	-0.364	-0.762
BXD04	-0.867	-0.569
BXD05	0.047	-0.555
BXD06	-0.065	0.042
BXD07	0.048	-0.743
BXD08	0.542	-0.345
BXD09	-0.235	-0.699
CAST	-0.14	-0.27
CCcont	0.391	-0.285
DS01	0.216	0.412
DS02	0.444	0.479
DS04	0.76	-0.298
DS0c	0.919	0.987
GP01	1.102	0.659
GP02	-0.083	-1.038
GP0c	0.541	0.927
NOD	-0.605	-0.091
NZO	-0.631	-0.477
PWK	0.283	0.193
H37Rv_KO_CtpC	-0.019	0.883
H37Rv_KO_CtpD	1.574	0.845
H37Rv_KO_Rv1272	0.553	0.284
H37Rv_KO_SugABC	0.111	0.565
H37Rv_KO_MbtN	0.942	-0.139
Trans05	0.228	0.156
macrophage_unactivated	-0.098	-0.966
IL1	-0.967	-0.86
Rapamycin	-0.344	0.04
Tcell	-1.062	-0.355
GMCSF	-0.082	0.0
IFNab	-0.596	-1.557
IFNg	-0.433	-0.329
IFNg_GMCSF1	-0.198	-0.167
Rv1432_day32	-0.679	0.145
Rv1565c_day32	-0.122	-1.518
secA2_input	0.26	0.549
delta_Rv3594	0.407	0.445
delta_Rv3717	0.079	0.148
delta_Rv3811	0.271	-0.428
delta_Rv0954	-0.152	1.56
PonA1	0.055	-0.017
EccD1_KO	0.069	0.395
EspI_KO	-0.933	-1.195
PE35_KO	0.061	-0.493
PPE68_KO	-0.205	-0.621
glycerol2	0.212	0.059
lignocerate	0.133	0.306
oleate	0.14	-0.077
phosphatidylcholine	-0.015	0.087
acetate	0.268	0.052
glucAc	-0.024	-0.314
Rv0950ko	0.199	0.232
Rv1096ko	0.576	0.066
Rv3684ko	0.046	-0.187
delta_otsA_trehalose	0.803	-1.475