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 Rv3440c/-

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

	Rv3578/arsB2	Rv3440c/-
Fe_supp_jason_reseq	0.107	-0.278
low_pH_jason_reseq	-0.497	-0.925
NO_jason_reseq	-0.533	-0.788
B6_jason_reseq	-0.472	-0.178
MHCII_jason_reseq	0.182	-0.112
Isoniazid02	0.32	0.838
Rifampicin4	0.788	0.85
Ethambutol3	0.247	0.817
Meropenem3	0.193	0.724
Vancomycin16	0.669	0.517
Rv2680_day32	-0.206	0.505
H37Rv_KO_MarP	0.061	-0.023
hypoxia_3wks	0.853	0.152
hypoxia_6wks	0.687	0.0
glycerol	1.056	0.758
cholesterol	0.987	0.088
AJ	0.466	0.615
Bibs02	1.282	0.668
Bibs02c	0.547	0.299
BL6	0.187	-0.197
BL6a	0.228	0.113
BXD01	0.009	0.243
BXD010	-0.081	-0.789
BXD011	-0.393	-1.159
BXD03	0.041	-0.563
BXD04	0.233	0.079
BXD05	-0.118	-0.97
BXD06	-0.151	-0.476
BXD07	-0.305	-0.377
BXD08	0.171	0.037
BXD09	-0.159	0.019
CAST	0.219	0.417
CCcont	0.045	-0.107
DS01	0.383	0.874
DS02	-0.227	0.837
DS04	0.073	0.86
DS0c	0.644	0.701
GP01	0.134	0.0
GP02	0.687	1.055
GP0c	0.176	0.213
NOD	0.877	0.181
NZO	0.546	0.811
PWK	-0.172	0.244
H37Rv_KO_CtpC	0.858	0.537
H37Rv_KO_CtpD	1.208	0.796
H37Rv_KO_Rv1272	0.256	0.343
H37Rv_KO_SugABC	0.457	1.312
H37Rv_KO_MbtN	-1.044	0.29
Trans05	-0.652	0.018
macrophage_unactivated	0.489	-0.464
IL1	0.107	-0.065
Rapamycin	0.451	0.178
Tcell	-0.121	-0.42
GMCSF	0.048	-0.293
IFNab	0.109	0.417
IFNg	0.142	0.222
IFNg_GMCSF1	-0.295	0.101
Rv1432_day32	0.486	0.158
Rv1565c_day32	0.336	-0.316
secA2_input	0.454	-0.124
delta_Rv3594	0.46	-0.285
delta_Rv3717	-0.04	-0.643
delta_Rv3811	0.708	-0.223
delta_Rv0954	0.322	-0.398
PonA1	0.024	-0.63
EccD1_KO	-0.168	-0.237
EspI_KO	-0.145	-0.011
PE35_KO	-0.274	-0.061
PPE68_KO	-0.445	-0.147
glycerol2	0.318	1.042
lignocerate	0.265	0.56
oleate	0.411	1.059
phosphatidylcholine	0.615	0.737
acetate	0.018	0.17
glucAc	-0.033	-0.134
Rv0950ko	-0.226	0.805
Rv1096ko	-0.084	0.434
Rv3684ko	0.029	0.694
delta_otsA_trehalose	0.095	-0.583