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 Rv3578/arsB2:

update plot	correlation	link to info on gene
Rv1163/narJ	(cc=0.4573)	info on Rv1163/narJ
Rv3440c/-	(cc=0.4366)	info on Rv3440c/-
Rv2974c/-	(cc=0.4006)	info on Rv2974c/-
Rv3788/-	(cc=0.3927)	info on Rv3788/-
Rv3507/PE_PGRS53	(cc=0.3839)	info on Rv3507/PE_PGRS53
Rv3122/-	(cc=0.379)	info on Rv3122/-
Rv3450c/eccB4	(cc=0.3768)	info on Rv3450c/eccB4
Rv1452c/PE_PGRS28	(cc=0.3731)	info on Rv1452c/PE_PGRS28
Rv1660/pks10	(cc=0.3716)	info on Rv1660/pks10
Rv0764c/cyp51	(cc=0.36)	info on Rv0764c/cyp51

Correlation of Rv3578/arsB2 with Rv2974c/-

Normalized LFCs for Rv3578/arsB2:
(description and provenance of datasets)

	Rv3578/arsB2	Rv2974c/-
Fe_supp_jason_reseq	0.107	0.166
low_pH_jason_reseq	-0.497	-1.497
NO_jason_reseq	-0.533	-0.071
B6_jason_reseq	-0.472	0.326
MHCII_jason_reseq	0.182	0.09
Isoniazid02	0.32	0.186
Rifampicin4	0.788	1.134
Ethambutol3	0.247	0.683
Meropenem3	0.193	1.423
Vancomycin16	0.669	0.422
Rv2680_day32	-0.206	0.458
H37Rv_KO_MarP	0.061	-0.337
hypoxia_3wks	0.853	0.0
hypoxia_6wks	0.687	-0.539
glycerol	1.056	1.258
cholesterol	0.987	0.797
AJ	0.466	0.477
Bibs02	1.282	0.723
Bibs02c	0.547	-0.676
BL6	0.187	-0.419
BL6a	0.228	-0.933
BXD01	0.009	-0.53
BXD010	-0.081	-0.032
BXD011	-0.393	-0.472
BXD03	0.041	-0.304
BXD04	0.233	-0.108
BXD05	-0.118	-0.466
BXD06	-0.151	-0.739
BXD07	-0.305	-0.37
BXD08	0.171	0.355
BXD09	-0.159	-0.662
CAST	0.219	0.344
CCcont	0.045	-0.118
DS01	0.383	0.676
DS02	-0.227	0.756
DS04	0.073	0.71
DS0c	0.644	0.781
GP01	0.134	-0.682
GP02	0.687	0.343
GP0c	0.176	-0.044
NOD	0.877	-0.197
NZO	0.546	0.146
PWK	-0.172	-0.067
H37Rv_KO_CtpC	0.858	0.157
H37Rv_KO_CtpD	1.208	0.933
H37Rv_KO_Rv1272	0.256	-0.456
H37Rv_KO_SugABC	0.457	0.644
H37Rv_KO_MbtN	-1.044	-0.299
Trans05	-0.652	-0.176
macrophage_unactivated	0.489	-1.016
IL1	0.107	-0.647
Rapamycin	0.451	-0.669
Tcell	-0.121	-0.71
GMCSF	0.048	-0.665
IFNab	0.109	-0.088
IFNg	0.142	-1.008
IFNg_GMCSF1	-0.295	-0.632
Rv1432_day32	0.486	0.79
Rv1565c_day32	0.336	-0.12
secA2_input	0.454	0.063
delta_Rv3594	0.46	0.116
delta_Rv3717	-0.04	0.109
delta_Rv3811	0.708	-0.173
delta_Rv0954	0.322	-0.103
PonA1	0.024	0.217
EccD1_KO	-0.168	-0.033
EspI_KO	-0.145	-0.06
PE35_KO	-0.274	-0.411
PPE68_KO	-0.445	-0.56
glycerol2	0.318	-0.412
lignocerate	0.265	-0.102
oleate	0.411	-0.198
phosphatidylcholine	0.615	0.098
acetate	0.018	0.228
glucAc	-0.033	-0.191
Rv0950ko	-0.226	0.075
Rv1096ko	-0.084	0.495
Rv3684ko	0.029	0.609
delta_otsA_trehalose	0.095	-0.574