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 Rv0492c/-:

update plot	correlation	link to info on gene
Rv3440c/-	(cc=0.5521)	info on Rv3440c/-
Rv2065/cobH	(cc=0.5491)	info on Rv2065/cobH
Rv1634/-	(cc=0.5131)	info on Rv1634/-
Rv2974c/-	(cc=0.4982)	info on Rv2974c/-
Rv1452c/PE_PGRS28	(cc=0.4898)	info on Rv1452c/PE_PGRS28
Rv2414c/-	(cc=0.4753)	info on Rv2414c/-
Rv0618/galTa	(cc=0.4553)	info on Rv0618/galTa
Rv3122/-	(cc=0.453)	info on Rv3122/-
Rv1468c/PE_PGRS29	(cc=0.4489)	info on Rv1468c/PE_PGRS29
Rv1407/fmu	(cc=0.4437)	info on Rv1407/fmu

Correlation of Rv0492c/- with Rv3440c/-

Normalized LFCs for Rv0492c/-:
(description and provenance of datasets)

	Rv0492c/-	Rv3440c/-
Fe_supp_jason_reseq	0.414	-0.278
low_pH_jason_reseq	-1.029	-0.925
NO_jason_reseq	-0.465	-0.788
B6_jason_reseq	-0.441	-0.178
MHCII_jason_reseq	0.039	-0.112
Isoniazid02	1.356	0.838
Rifampicin4	1.088	0.85
Ethambutol3	0.465	0.817
Meropenem3	0.997	0.724
Vancomycin16	0.846	0.517
Rv2680_day32	0.691	0.505
H37Rv_KO_MarP	0.349	-0.023
hypoxia_3wks	-0.096	0.152
hypoxia_6wks	-0.777	0.0
glycerol	0.929	0.758
cholesterol	0.496	0.088
AJ	0.299	0.615
Bibs02	0.156	0.668
Bibs02c	0.014	0.299
BL6	0.707	-0.197
BL6a	0.362	0.113
BXD01	0.304	0.243
BXD010	0.118	-0.789
BXD011	0.0	-1.159
BXD03	-0.189	-0.563
BXD04	0.0	0.079
BXD05	-0.562	-0.97
BXD06	-0.187	-0.476
BXD07	0.39	-0.377
BXD08	0.106	0.037
BXD09	-0.01	0.019
CAST	0.284	0.417
CCcont	0.373	-0.107
DS01	0.833	0.874
DS02	0.52	0.837
DS04	0.117	0.86
DS0c	-0.016	0.701
GP01	1.039	0.0
GP02	0.781	1.055
GP0c	0.521	0.213
NOD	0.33	0.181
NZO	0.053	0.811
PWK	0.335	0.244
H37Rv_KO_CtpC	0.588	0.537
H37Rv_KO_CtpD	0.855	0.796
H37Rv_KO_Rv1272	0.233	0.343
H37Rv_KO_SugABC	1.094	1.312
H37Rv_KO_MbtN	0.947	0.29
Trans05	0.641	0.018
macrophage_unactivated	-0.066	-0.464
IL1	0.181	-0.065
Rapamycin	-0.043	0.178
Tcell	-0.023	-0.42
GMCSF	0.61	-0.293
IFNab	0.206	0.417
IFNg	0.075	0.222
IFNg_GMCSF1	0.129	0.101
Rv1432_day32	0.913	0.158
Rv1565c_day32	0.046	-0.316
secA2_input	0.327	-0.124
delta_Rv3594	0.083	-0.285
delta_Rv3717	-0.253	-0.643
delta_Rv3811	0.091	-0.223
delta_Rv0954	0.43	-0.398
PonA1	0.384	-0.63
EccD1_KO	0.263	-0.237
EspI_KO	-0.279	-0.011
PE35_KO	-0.286	-0.061
PPE68_KO	-0.019	-0.147
glycerol2	0.102	1.042
lignocerate	-0.214	0.56
oleate	0.58	1.059
phosphatidylcholine	0.092	0.737
acetate	-0.625	0.17
glucAc	-0.348	-0.134
Rv0950ko	0.549	0.805
Rv1096ko	0.621	0.434
Rv3684ko	0.576	0.694
delta_otsA_trehalose	-0.229	-0.583