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 Rv0764c/cyp51

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

	Rv3578/arsB2	Rv0764c/cyp51
Fe_supp_jason_reseq	0.107	-0.128
low_pH_jason_reseq	-0.497	-0.592
NO_jason_reseq	-0.533	-0.213
B6_jason_reseq	-0.472	0.603
MHCII_jason_reseq	0.182	-0.366
Isoniazid02	0.32	0.383
Rifampicin4	0.788	0.344
Ethambutol3	0.247	0.297
Meropenem3	0.193	0.543
Vancomycin16	0.669	0.284
Rv2680_day32	-0.206	-0.749
H37Rv_KO_MarP	0.061	1.054
hypoxia_3wks	0.853	1.057
hypoxia_6wks	0.687	0.528
glycerol	1.056	-0.904
cholesterol	0.987	0.463
AJ	0.466	1.123
Bibs02	1.282	0.195
Bibs02c	0.547	0.847
BL6	0.187	-1.52
BL6a	0.228	-0.385
BXD01	0.009	-0.101
BXD010	-0.081	-1.483
BXD011	-0.393	-0.607
BXD03	0.041	-1.084
BXD04	0.233	-0.786
BXD05	-0.118	-1.222
BXD06	-0.151	-0.825
BXD07	-0.305	-1.003
BXD08	0.171	-0.486
BXD09	-0.159	-1.098
CAST	0.219	0.377
CCcont	0.045	-0.923
DS01	0.383	1.239
DS02	-0.227	1.002
DS04	0.073	1.029
DS0c	0.644	1.812
GP01	0.134	0.857
GP02	0.687	-0.315
GP0c	0.176	-0.024
NOD	0.877	0.732
NZO	0.546	1.397
PWK	-0.172	0.306
H37Rv_KO_CtpC	0.858	-0.061
H37Rv_KO_CtpD	1.208	0.505
H37Rv_KO_Rv1272	0.256	0.995
H37Rv_KO_SugABC	0.457	0.456
H37Rv_KO_MbtN	-1.044	-0.404
Trans05	-0.652	0.025
macrophage_unactivated	0.489	0.388
IL1	0.107	-0.724
Rapamycin	0.451	-0.988
Tcell	-0.121	-0.215
GMCSF	0.048	-0.644
IFNab	0.109	-1.221
IFNg	0.142	-1.08
IFNg_GMCSF1	-0.295	-0.314
Rv1432_day32	0.486	0.0
Rv1565c_day32	0.336	0.199
secA2_input	0.454	-0.283
delta_Rv3594	0.46	0.223
delta_Rv3717	-0.04	0.184
delta_Rv3811	0.708	1.509
delta_Rv0954	0.322	0.293
PonA1	0.024	0.566
EccD1_KO	-0.168	-0.27
EspI_KO	-0.145	0.134
PE35_KO	-0.274	-0.19
PPE68_KO	-0.445	-0.051
glycerol2	0.318	0.311
lignocerate	0.265	0.013
oleate	0.411	0.611
phosphatidylcholine	0.615	0.451
acetate	0.018	-0.482
glucAc	-0.033	-1.034
Rv0950ko	-0.226	0.0
Rv1096ko	-0.084	0.139
Rv3684ko	0.029	-0.426
delta_otsA_trehalose	0.095	0.564