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 Rv3450c/eccB4

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

	Rv3578/arsB2	Rv3450c/eccB4
Fe_supp_jason_reseq	0.107	-0.294
low_pH_jason_reseq	-0.497	-0.761
NO_jason_reseq	-0.533	-0.572
B6_jason_reseq	-0.472	0.09
MHCII_jason_reseq	0.182	0.893
Isoniazid02	0.32	1.145
Rifampicin4	0.788	1.099
Ethambutol3	0.247	1.439
Meropenem3	0.193	-0.364
Vancomycin16	0.669	0.077
Rv2680_day32	-0.206	2.022
H37Rv_KO_MarP	0.061	0.628
hypoxia_3wks	0.853	0.128
hypoxia_6wks	0.687	-0.599
glycerol	1.056	0.813
cholesterol	0.987	0.263
AJ	0.466	0.225
Bibs02	1.282	0.646
Bibs02c	0.547	0.793
BL6	0.187	-0.716
BL6a	0.228	0.64
BXD01	0.009	-0.257
BXD010	-0.081	-0.786
BXD011	-0.393	-0.567
BXD03	0.041	-0.66
BXD04	0.233	0.024
BXD05	-0.118	-0.31
BXD06	-0.151	-0.719
BXD07	-0.305	-0.374
BXD08	0.171	-0.231
BXD09	-0.159	-0.459
CAST	0.219	0.14
CCcont	0.045	-0.191
DS01	0.383	0.666
DS02	-0.227	0.594
DS04	0.073	0.422
DS0c	0.644	1.259
GP01	0.134	0.045
GP02	0.687	0.06
GP0c	0.176	-0.834
NOD	0.877	0.225
NZO	0.546	-0.247
PWK	-0.172	0.232
H37Rv_KO_CtpC	0.858	-0.844
H37Rv_KO_CtpD	1.208	-0.035
H37Rv_KO_Rv1272	0.256	-0.76
H37Rv_KO_SugABC	0.457	0.078
H37Rv_KO_MbtN	-1.044	-0.902
Trans05	-0.652	-0.82
macrophage_unactivated	0.489	-0.347
IL1	0.107	0.225
Rapamycin	0.451	0.939
Tcell	-0.121	-0.44
GMCSF	0.048	0.058
IFNab	0.109	0.659
IFNg	0.142	-0.631
IFNg_GMCSF1	-0.295	0.035
Rv1432_day32	0.486	-0.284
Rv1565c_day32	0.336	0.674
secA2_input	0.454	1.243
delta_Rv3594	0.46	-0.367
delta_Rv3717	-0.04	-0.15
delta_Rv3811	0.708	-0.104
delta_Rv0954	0.322	-0.481
PonA1	0.024	0.305
EccD1_KO	-0.168	-0.921
EspI_KO	-0.145	-1.32
PE35_KO	-0.274	-0.901
PPE68_KO	-0.445	-1.203
glycerol2	0.318	-0.01
lignocerate	0.265	0.337
oleate	0.411	0.238
phosphatidylcholine	0.615	0.472
acetate	0.018	-0.14
glucAc	-0.033	-0.171
Rv0950ko	-0.226	-0.109
Rv1096ko	-0.084	0.311
Rv3684ko	0.029	-0.029
delta_otsA_trehalose	0.095	0.364