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 Rv1358/-:

update plot	correlation	link to info on gene
Rv3098c/-	(cc=0.5094)	info on Rv3098c/-
Rv2320c/rocE	(cc=0.4733)	info on Rv2320c/rocE
Rv0892/-	(cc=0.4726)	info on Rv0892/-
Rv0908/ctpE	(cc=0.4674)	info on Rv0908/ctpE
Rv1984c/cfp21	(cc=0.4633)	info on Rv1984c/cfp21
Rv3238c/-	(cc=0.4358)	info on Rv3238c/-
Rv0852/fadD16	(cc=0.4341)	info on Rv0852/fadD16
Rv3022A/PE29	(cc=0.4273)	info on Rv3022A/PE29
Rv0845/-	(cc=0.4183)	info on Rv0845/-
Rv1400c/lipI	(cc=0.4148)	info on Rv1400c/lipI

Correlation of Rv1358/- with Rv0845/-

Normalized LFCs for Rv1358/-:
(description and provenance of datasets)

	Rv1358/-	Rv0845/-
Fe_supp_jason_reseq	0.218	-0.38
low_pH_jason_reseq	0.149	0.815
NO_jason_reseq	-0.139	-0.41
B6_jason_reseq	0.421	-0.712
MHCII_jason_reseq	-0.33	-1.227
Isoniazid02	-0.294	0.972
Rifampicin4	-0.06	-0.081
Ethambutol3	0.275	0.472
Meropenem3	0.562	-0.097
Vancomycin16	-0.029	0.204
Rv2680_day32	-0.599	-0.313
H37Rv_KO_MarP	-0.021	0.141
hypoxia_3wks	-0.048	-0.088
hypoxia_6wks	0.1	-0.14
glycerol	-0.266	-0.767
cholesterol	-0.065	-0.413
AJ	0.061	0.0
Bibs02	0.048	0.947
Bibs02c	0.161	0.226
BL6	-0.399	-0.073
BL6a	0.217	0.426
BXD01	-0.198	0.572
BXD010	-0.348	0.861
BXD011	0.139	0.568
BXD03	-0.399	0.445
BXD04	0.105	0.457
BXD05	0.126	-0.095
BXD06	0.035	0.223
BXD07	-0.012	0.259
BXD08	-0.036	0.392
BXD09	-0.076	0.497
CAST	0.195	0.537
CCcont	-0.138	-0.035
DS01	-0.086	0.349
DS02	0.038	-0.347
DS04	0.034	0.287
DS0c	0.113	0.321
GP01	-0.092	-0.119
GP02	-0.255	-1.034
GP0c	-0.414	-1.132
NOD	0.548	0.376
NZO	-0.053	1.046
PWK	0.408	0.192
H37Rv_KO_CtpC	0.278	0.713
H37Rv_KO_CtpD	0.596	0.797
H37Rv_KO_Rv1272	0.606	0.65
H37Rv_KO_SugABC	0.659	0.814
H37Rv_KO_MbtN	0.662	0.723
Trans05	0.707	1.127
macrophage_unactivated	0.404	1.026
IL1	-0.258	0.531
Rapamycin	-0.19	0.632
Tcell	0.156	0.202
GMCSF	-0.264	1.085
IFNab	0.351	0.187
IFNg	0.371	0.732
IFNg_GMCSF1	-0.075	0.0
Rv1432_day32	0.153	0.407
Rv1565c_day32	0.758	0.379
secA2_input	-0.77	-0.369
delta_Rv3594	0.13	-0.174
delta_Rv3717	-0.385	-0.656
delta_Rv3811	-0.455	0.171
delta_Rv0954	0.298	0.213
PonA1	-0.409	-0.365
EccD1_KO	0.224	0.763
EspI_KO	0.234	0.63
PE35_KO	0.677	0.333
PPE68_KO	0.819	0.288
glycerol2	-0.104	0.025
lignocerate	-0.242	-0.15
oleate	0.058	0.364
phosphatidylcholine	-0.104	0.025
acetate	-0.234	-0.323
glucAc	-0.458	-0.577
Rv0950ko	0.528	0.033
Rv1096ko	0.371	-0.133
Rv3684ko	0.367	0.141
delta_otsA_trehalose	-1.22	-0.421