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 Rv1948c/-

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

	Rv3758c/proV	Rv1948c/-
Fe_supp_jason_reseq	0.096	-0.508
low_pH_jason_reseq	-0.393	-0.206
NO_jason_reseq	0.312	0.887
B6_jason_reseq	0.084	-2.506
MHCII_jason_reseq	-0.766	-1.292
Isoniazid02	0.023	-0.185
Rifampicin4	-0.376	-0.791
Ethambutol3	0.117	1.612
Meropenem3	0.188	-0.38
Vancomycin16	1.263	0.361
Rv2680_day32	0.617	0.915
H37Rv_KO_MarP	0.711	-0.123
hypoxia_3wks	0.056	0.219
hypoxia_6wks	0.198	-0.885
glycerol	0.671	-0.348
cholesterol	0.178	0.064
AJ	0.108	1.086
Bibs02	0.544	-0.817
Bibs02c	0.677	1.984
BL6	0.634	1.445
BL6a	-0.023	1.709
BXD01	0.241	0.512
BXD010	0.502	0.421
BXD011	-0.178	0.163
BXD03	-0.364	-0.513
BXD04	-0.867	0.322
BXD05	0.047	0.991
BXD06	-0.065	0.525
BXD07	0.048	0.707
BXD08	0.542	0.437
BXD09	-0.235	0.152
CAST	-0.14	-0.277
CCcont	0.391	1.509
DS01	0.216	0.571
DS02	0.444	0.321
DS04	0.76	1.292
DS0c	0.919	1.31
GP01	1.102	1.547
GP02	-0.083	0.019
GP0c	0.541	1.727
NOD	-0.605	-0.576
NZO	-0.631	0.483
PWK	0.283	0.74
H37Rv_KO_CtpC	-0.019	0.981
H37Rv_KO_CtpD	1.574	1.213
H37Rv_KO_Rv1272	0.553	1.702
H37Rv_KO_SugABC	0.111	0.706
H37Rv_KO_MbtN	0.942	1.766
Trans05	0.228	1.32
macrophage_unactivated	-0.098	-0.521
IL1	-0.967	0.0
Rapamycin	-0.344	-0.856
Tcell	-1.062	-0.831
GMCSF	-0.082	-0.053
IFNab	-0.596	-0.121
IFNg	-0.433	0.0
IFNg_GMCSF1	-0.198	-0.126
Rv1432_day32	-0.679	0.117
Rv1565c_day32	-0.122	-0.839
secA2_input	0.26	-0.87
delta_Rv3594	0.407	0.193
delta_Rv3717	0.079	0.06
delta_Rv3811	0.271	0.419
delta_Rv0954	-0.152	0.041
PonA1	0.055	-0.058
EccD1_KO	0.069	-0.493
EspI_KO	-0.933	-0.687
PE35_KO	0.061	0.312
PPE68_KO	-0.205	0.294
glycerol2	0.212	-0.233
lignocerate	0.133	0.216
oleate	0.14	0.211
phosphatidylcholine	-0.015	0.127
acetate	0.268	0.514
glucAc	-0.024	0.319
Rv0950ko	0.199	0.217
Rv1096ko	0.576	-1.342
Rv3684ko	0.046	-2.319
delta_otsA_trehalose	0.803	-0.785