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 Rv3750c/-

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

	Rv2519/PE26	Rv3750c/-
Fe_supp_jason_reseq	0.458	-0.723
low_pH_jason_reseq	-0.074	-0.052
NO_jason_reseq	0.045	-0.163
B6_jason_reseq	-0.416	-1.315
MHCII_jason_reseq	-0.542	-1.782
Isoniazid02	0.412	0.039
Rifampicin4	0.387	-0.758
Ethambutol3	1.008	0.134
Meropenem3	0.339	-0.492
Vancomycin16	0.329	0.058
Rv2680_day32	0.166	0.426
H37Rv_KO_MarP	0.147	0.498
hypoxia_3wks	-0.211	-1.447
hypoxia_6wks	-0.271	-0.679
glycerol	0.118	1.233
cholesterol	0.45	-0.765
AJ	-0.047	-0.536
Bibs02	0.054	0.764
Bibs02c	0.22	1.075
BL6	0.795	0.798
BL6a	0.446	1.499
BXD01	0.534	1.087
BXD010	0.61	1.049
BXD011	0.328	0.801
BXD03	0.626	0.729
BXD04	0.605	0.932
BXD05	0.477	1.4
BXD06	0.848	1.206
BXD07	0.255	1.543
BXD08	0.667	1.697
BXD09	0.427	0.75
CAST	0.22	1.148
CCcont	0.582	1.338
DS01	0.414	0.811
DS02	0.577	1.257
DS04	0.898	0.032
DS0c	0.189	1.92
GP01	0.489	1.878
GP02	0.524	-0.042
GP0c	0.489	0.865
NOD	-0.14	0.361
NZO	0.559	0.685
PWK	-0.32	-0.453
H37Rv_KO_CtpC	1.638	1.655
H37Rv_KO_CtpD	1.208	0.933
H37Rv_KO_Rv1272	1.124	1.322
H37Rv_KO_SugABC	1.198	0.409
H37Rv_KO_MbtN	0.878	1.622
Trans05	1.06	1.553
macrophage_unactivated	0.527	0.413
IL1	0.225	-0.682
Rapamycin	0.068	0.095
Tcell	0.072	-0.062
GMCSF	0.441	0.224
IFNab	-0.172	-0.435
IFNg	-0.278	0.545
IFNg_GMCSF1	0.204	0.936
Rv1432_day32	0.029	-0.563
Rv1565c_day32	0.43	1.265
secA2_input	-0.495	-0.537
delta_Rv3594	-0.09	0.324
delta_Rv3717	0.26	-0.372
delta_Rv3811	0.126	-0.122
delta_Rv0954	0.202	-0.496
PonA1	0.129	-0.763
EccD1_KO	-0.184	-0.023
EspI_KO	0.0	0.294
PE35_KO	-0.082	-1.041
PPE68_KO	-0.525	-1.126
glycerol2	-0.468	-0.261
lignocerate	-0.16	0.226
oleate	-0.885	0.009
phosphatidylcholine	-0.109	0.017
acetate	-0.721	0.219
glucAc	-0.159	0.466
Rv0950ko	-0.096	-0.383
Rv1096ko	-0.618	-1.149
Rv3684ko	-0.524	-0.874
delta_otsA_trehalose	0.519	2.322