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 Rv1091/PE_PGRS22

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

	Rv3758c/proV	Rv1091/PE_PGRS22
Fe_supp_jason_reseq	0.096	-0.612
low_pH_jason_reseq	-0.393	-0.318
NO_jason_reseq	0.312	-0.087
B6_jason_reseq	0.084	-0.686
MHCII_jason_reseq	-0.766	0.273
Isoniazid02	0.023	-1.317
Rifampicin4	-0.376	0.563
Ethambutol3	0.117	0.074
Meropenem3	0.188	0.268
Vancomycin16	1.263	-0.348
Rv2680_day32	0.617	-0.091
H37Rv_KO_MarP	0.711	-0.202
hypoxia_3wks	0.056	0.171
hypoxia_6wks	0.198	0.177
glycerol	0.671	1.072
cholesterol	0.178	0.81
AJ	0.108	0.919
Bibs02	0.544	1.439
Bibs02c	0.677	0.985
BL6	0.634	-1.01
BL6a	-0.023	0.531
BXD01	0.241	0.349
BXD010	0.502	0.155
BXD011	-0.178	0.277
BXD03	-0.364	0.043
BXD04	-0.867	0.058
BXD05	0.047	0.473
BXD06	-0.065	-0.258
BXD07	0.048	0.422
BXD08	0.542	0.103
BXD09	-0.235	-0.046
CAST	-0.14	0.247
CCcont	0.391	-0.609
DS01	0.216	0.45
DS02	0.444	0.688
DS04	0.76	0.568
DS0c	0.919	0.035
GP01	1.102	0.505
GP02	-0.083	0.547
GP0c	0.541	0.472
NOD	-0.605	0.488
NZO	-0.631	-0.133
PWK	0.283	0.666
H37Rv_KO_CtpC	-0.019	0.076
H37Rv_KO_CtpD	1.574	0.865
H37Rv_KO_Rv1272	0.553	2.015
H37Rv_KO_SugABC	0.111	-0.529
H37Rv_KO_MbtN	0.942	-0.667
Trans05	0.228	0.35
macrophage_unactivated	-0.098	-0.527
IL1	-0.967	-1.883
Rapamycin	-0.344	-1.676
Tcell	-1.062	-1.245
GMCSF	-0.082	-0.747
IFNab	-0.596	-2.515
IFNg	-0.433	-1.307
IFNg_GMCSF1	-0.198	-0.669
Rv1432_day32	-0.679	0.441
Rv1565c_day32	-0.122	-0.924
secA2_input	0.26	-0.211
delta_Rv3594	0.407	0.229
delta_Rv3717	0.079	0.294
delta_Rv3811	0.271	-0.168
delta_Rv0954	-0.152	-1.098
PonA1	0.055	0.21
EccD1_KO	0.069	0.513
EspI_KO	-0.933	-0.459
PE35_KO	0.061	0.067
PPE68_KO	-0.205	0.074
glycerol2	0.212	-0.666
lignocerate	0.133	-1.094
oleate	0.14	-0.102
phosphatidylcholine	-0.015	-0.564
acetate	0.268	-0.557
glucAc	-0.024	-0.543
Rv0950ko	0.199	0.476
Rv1096ko	0.576	1.215
Rv3684ko	0.046	0.19
delta_otsA_trehalose	0.803	0.272