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 Rv1676/-

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

	Rv3758c/proV	Rv1676/-
Fe_supp_jason_reseq	0.096	-0.818
low_pH_jason_reseq	-0.393	0.34
NO_jason_reseq	0.312	0.533
B6_jason_reseq	0.084	-0.411
MHCII_jason_reseq	-0.766	0.103
Isoniazid02	0.023	0.268
Rifampicin4	-0.376	0.726
Ethambutol3	0.117	0.039
Meropenem3	0.188	0.803
Vancomycin16	1.263	0.99
Rv2680_day32	0.617	-0.393
H37Rv_KO_MarP	0.711	1.507
hypoxia_3wks	0.056	0.0
hypoxia_6wks	0.198	0.808
glycerol	0.671	1.181
cholesterol	0.178	-0.118
AJ	0.108	1.062
Bibs02	0.544	0.138
Bibs02c	0.677	0.85
BL6	0.634	-0.138
BL6a	-0.023	0.502
BXD01	0.241	-0.695
BXD010	0.502	-0.8
BXD011	-0.178	-0.34
BXD03	-0.364	-1.209
BXD04	-0.867	-0.508
BXD05	0.047	-0.148
BXD06	-0.065	-1.465
BXD07	0.048	-0.865
BXD08	0.542	-1.794
BXD09	-0.235	-1.256
CAST	-0.14	0.853
CCcont	0.391	0.285
DS01	0.216	1.381
DS02	0.444	2.105
DS04	0.76	0.753
DS0c	0.919	1.425
GP01	1.102	-0.527
GP02	-0.083	0.603
GP0c	0.541	0.16
NOD	-0.605	-0.381
NZO	-0.631	0.587
PWK	0.283	-0.053
H37Rv_KO_CtpC	-0.019	0.309
H37Rv_KO_CtpD	1.574	2.042
H37Rv_KO_Rv1272	0.553	1.968
H37Rv_KO_SugABC	0.111	1.851
H37Rv_KO_MbtN	0.942	1.596
Trans05	0.228	1.077
macrophage_unactivated	-0.098	-1.502
IL1	-0.967	-2.966
Rapamycin	-0.344	-3.069
Tcell	-1.062	-2.704
GMCSF	-0.082	-2.64
IFNab	-0.596	-3.607
IFNg	-0.433	-3.188
IFNg_GMCSF1	-0.198	-2.13
Rv1432_day32	-0.679	1.46
Rv1565c_day32	-0.122	0.36
secA2_input	0.26	-0.568
delta_Rv3594	0.407	-0.396
delta_Rv3717	0.079	-0.615
delta_Rv3811	0.271	-1.981
delta_Rv0954	-0.152	0.194
PonA1	0.055	0.386
EccD1_KO	0.069	1.168
EspI_KO	-0.933	1.372
PE35_KO	0.061	1.607
PPE68_KO	-0.205	1.302
glycerol2	0.212	0.581
lignocerate	0.133	0.843
oleate	0.14	-0.163
phosphatidylcholine	-0.015	0.542
acetate	0.268	1.15
glucAc	-0.024	1.052
Rv0950ko	0.199	-1.33
Rv1096ko	0.576	0.075
Rv3684ko	0.046	0.0
delta_otsA_trehalose	0.803	-0.232