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 Rv3122/-

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

	Rv3578/arsB2	Rv3122/-
Fe_supp_jason_reseq	0.107	0.069
low_pH_jason_reseq	-0.497	-1.005
NO_jason_reseq	-0.533	-0.772
B6_jason_reseq	-0.472	-0.461
MHCII_jason_reseq	0.182	-0.561
Isoniazid02	0.32	2.247
Rifampicin4	0.788	0.287
Ethambutol3	0.247	0.958
Meropenem3	0.193	-0.042
Vancomycin16	0.669	-0.016
Rv2680_day32	-0.206	0.068
H37Rv_KO_MarP	0.061	-0.428
hypoxia_3wks	0.853	0.02
hypoxia_6wks	0.687	-0.363
glycerol	1.056	-0.247
cholesterol	0.987	0.206
AJ	0.466	0.084
Bibs02	1.282	1.015
Bibs02c	0.547	-0.668
BL6	0.187	-0.077
BL6a	0.228	-0.129
BXD01	0.009	-0.599
BXD010	-0.081	-0.228
BXD011	-0.393	-0.238
BXD03	0.041	-0.27
BXD04	0.233	-0.042
BXD05	-0.118	-0.01
BXD06	-0.151	0.337
BXD07	-0.305	-0.381
BXD08	0.171	-0.076
BXD09	-0.159	0.005
CAST	0.219	-0.035
CCcont	0.045	0.212
DS01	0.383	-0.505
DS02	-0.227	0.681
DS04	0.073	0.715
DS0c	0.644	0.179
GP01	0.134	-0.133
GP02	0.687	0.485
GP0c	0.176	0.014
NOD	0.877	0.153
NZO	0.546	0.735
PWK	-0.172	-0.183
H37Rv_KO_CtpC	0.858	0.612
H37Rv_KO_CtpD	1.208	1.262
H37Rv_KO_Rv1272	0.256	-0.184
H37Rv_KO_SugABC	0.457	0.613
H37Rv_KO_MbtN	-1.044	0.106
Trans05	-0.652	-0.06
macrophage_unactivated	0.489	-0.114
IL1	0.107	-0.228
Rapamycin	0.451	-0.11
Tcell	-0.121	-0.358
GMCSF	0.048	-0.541
IFNab	0.109	-0.076
IFNg	0.142	-0.096
IFNg_GMCSF1	-0.295	0.185
Rv1432_day32	0.486	-0.035
Rv1565c_day32	0.336	-0.109
secA2_input	0.454	0.11
delta_Rv3594	0.46	-0.113
delta_Rv3717	-0.04	-0.21
delta_Rv3811	0.708	0.059
delta_Rv0954	0.322	0.187
PonA1	0.024	-0.053
EccD1_KO	-0.168	-0.49
EspI_KO	-0.145	-0.088
PE35_KO	-0.274	-0.893
PPE68_KO	-0.445	-1.261
glycerol2	0.318	0.132
lignocerate	0.265	0.153
oleate	0.411	-0.113
phosphatidylcholine	0.615	-0.155
acetate	0.018	-0.211
glucAc	-0.033	-0.099
Rv0950ko	-0.226	0.971
Rv1096ko	-0.084	-0.561
Rv3684ko	0.029	0.16
delta_otsA_trehalose	0.095	-0.654