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 Rv2519/PE26:

update plot	correlation	link to info on gene
Rv1918c/PPE35	(cc=0.7025)	info on Rv1918c/PPE35
Rv2735c/-	(cc=0.6526)	info on Rv2735c/-
Rv2543/lppA	(cc=0.6495)	info on Rv2543/lppA
Rv0149/-	(cc=0.6362)	info on Rv0149/-
Rv1059/-	(cc=0.6192)	info on Rv1059/-
Rv1504c/-	(cc=0.6143)	info on Rv1504c/-
Rv1633/uvrB	(cc=0.6114)	info on Rv1633/uvrB
Rv3750c/-	(cc=0.5945)	info on Rv3750c/-
Rv1498A/-	(cc=0.5856)	info on Rv1498A/-
Rv2161c/-	(cc=0.578)	info on Rv2161c/-

Correlation of Rv2519/PE26 with Rv2161c/-

Normalized LFCs for Rv2519/PE26:
(description and provenance of datasets)

	Rv2519/PE26	Rv2161c/-
Fe_supp_jason_reseq	0.458	-0.42
low_pH_jason_reseq	-0.074	-1.094
NO_jason_reseq	0.045	0.263
B6_jason_reseq	-0.416	-1.21
MHCII_jason_reseq	-0.542	-0.761
Isoniazid02	0.412	0.549
Rifampicin4	0.387	1.625
Ethambutol3	1.008	2.539
Meropenem3	0.339	-0.237
Vancomycin16	0.329	0.093
Rv2680_day32	0.166	-0.274
H37Rv_KO_MarP	0.147	-0.593
hypoxia_3wks	-0.211	-0.57
hypoxia_6wks	-0.271	-1.295
glycerol	0.118	1.374
cholesterol	0.45	0.367
AJ	-0.047	0.731
Bibs02	0.054	0.413
Bibs02c	0.22	0.415
BL6	0.795	0.802
BL6a	0.446	0.971
BXD01	0.534	1.292
BXD010	0.61	0.409
BXD011	0.328	1.39
BXD03	0.626	0.995
BXD04	0.605	2.011
BXD05	0.477	1.061
BXD06	0.848	0.86
BXD07	0.255	1.054
BXD08	0.667	0.704
BXD09	0.427	1.089
CAST	0.22	0.39
CCcont	0.582	0.627
DS01	0.414	0.08
DS02	0.577	-0.142
DS04	0.898	0.483
DS0c	0.189	-0.596
GP01	0.489	0.684
GP02	0.524	0.286
GP0c	0.489	0.155
NOD	-0.14	-0.583
NZO	0.559	0.488
PWK	-0.32	0.575
H37Rv_KO_CtpC	1.638	2.137
H37Rv_KO_CtpD	1.208	1.16
H37Rv_KO_Rv1272	1.124	1.905
H37Rv_KO_SugABC	1.198	0.791
H37Rv_KO_MbtN	0.878	0.118
Trans05	1.06	1.304
macrophage_unactivated	0.527	-0.502
IL1	0.225	0.442
Rapamycin	0.068	-0.071
Tcell	0.072	-0.075
GMCSF	0.441	-0.008
IFNab	-0.172	-0.635
IFNg	-0.278	-0.406
IFNg_GMCSF1	0.204	-0.899
Rv1432_day32	0.029	0.538
Rv1565c_day32	0.43	-1.546
secA2_input	-0.495	0.559
delta_Rv3594	-0.09	0.329
delta_Rv3717	0.26	-0.16
delta_Rv3811	0.126	-0.382
delta_Rv0954	0.202	-0.434
PonA1	0.129	-0.12
EccD1_KO	-0.184	-0.339
EspI_KO	0.0	-0.425
PE35_KO	-0.082	-0.508
PPE68_KO	-0.525	-0.573
glycerol2	-0.468	0.797
lignocerate	-0.16	0.533
oleate	-0.885	0.054
phosphatidylcholine	-0.109	0.357
acetate	-0.721	-0.469
glucAc	-0.159	-0.152
Rv0950ko	-0.096	-0.404
Rv1096ko	-0.618	-0.881
Rv3684ko	-0.524	-0.557
delta_otsA_trehalose	0.519	-0.656