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 Rv1452c/PE_PGRS28

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

	Rv3578/arsB2	Rv1452c/PE_PGRS28
Fe_supp_jason_reseq	0.107	-0.046
low_pH_jason_reseq	-0.497	-0.765
NO_jason_reseq	-0.533	-0.396
B6_jason_reseq	-0.472	-0.24
MHCII_jason_reseq	0.182	0.75
Isoniazid02	0.32	1.064
Rifampicin4	0.788	0.636
Ethambutol3	0.247	0.911
Meropenem3	0.193	1.12
Vancomycin16	0.669	0.027
Rv2680_day32	-0.206	-0.669
H37Rv_KO_MarP	0.061	-0.555
hypoxia_3wks	0.853	0.0
hypoxia_6wks	0.687	-0.411
glycerol	1.056	1.849
cholesterol	0.987	0.649
AJ	0.466	1.04
Bibs02	1.282	1.558
Bibs02c	0.547	1.122
BL6	0.187	0.057
BL6a	0.228	0.462
BXD01	0.009	0.149
BXD010	-0.081	-0.125
BXD011	-0.393	0.306
BXD03	0.041	0.132
BXD04	0.233	0.1
BXD05	-0.118	0.667
BXD06	-0.151	-0.187
BXD07	-0.305	0.323
BXD08	0.171	0.34
BXD09	-0.159	0.039
CAST	0.219	0.719
CCcont	0.045	-0.325
DS01	0.383	0.31
DS02	-0.227	0.474
DS04	0.073	1.313
DS0c	0.644	-0.041
GP01	0.134	0.825
GP02	0.687	1.219
GP0c	0.176	1.25
NOD	0.877	1.396
NZO	0.546	0.595
PWK	-0.172	0.192
H37Rv_KO_CtpC	0.858	0.993
H37Rv_KO_CtpD	1.208	1.665
H37Rv_KO_Rv1272	0.256	-0.095
H37Rv_KO_SugABC	0.457	0.531
H37Rv_KO_MbtN	-1.044	0.843
Trans05	-0.652	0.095
macrophage_unactivated	0.489	-0.028
IL1	0.107	0.05
Rapamycin	0.451	-0.276
Tcell	-0.121	-0.74
GMCSF	0.048	0.734
IFNab	0.109	-0.656
IFNg	0.142	-0.048
IFNg_GMCSF1	-0.295	-0.057
Rv1432_day32	0.486	0.754
Rv1565c_day32	0.336	-0.635
secA2_input	0.454	-0.653
delta_Rv3594	0.46	-0.217
delta_Rv3717	-0.04	0.477
delta_Rv3811	0.708	-0.125
delta_Rv0954	0.322	-0.667
PonA1	0.024	-0.299
EccD1_KO	-0.168	0.724
EspI_KO	-0.145	-0.345
PE35_KO	-0.274	0.079
PPE68_KO	-0.445	-0.202
glycerol2	0.318	-0.581
lignocerate	0.265	-0.567
oleate	0.411	-0.345
phosphatidylcholine	0.615	-0.164
acetate	0.018	-0.982
glucAc	-0.033	0.026
Rv0950ko	-0.226	0.042
Rv1096ko	-0.084	0.223
Rv3684ko	0.029	-0.255
delta_otsA_trehalose	0.095	-1.019