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 Rv0294/tam:

update plot	correlation	link to info on gene
Rv2877c/-	(cc=0.4529)	info on Rv2877c/-
Rv1225c/-	(cc=0.4257)	info on Rv1225c/-
Rv0958/-	(cc=0.394)	info on Rv0958/-
Rv1525/wbbL2	(cc=0.3897)	info on Rv1525/wbbL2
Rv0605/-	(cc=0.3887)	info on Rv0605/-
Rv2620c/-	(cc=0.3851)	info on Rv2620c/-
Rv0492A/-	(cc=0.3801)	info on Rv0492A/-
Rv2967c/pca	(cc=0.3768)	info on Rv2967c/pca
Rv2911/dacB2	(cc=0.3698)	info on Rv2911/dacB2
Rv0028/-	(cc=0.3642)	info on Rv0028/-

Correlation of Rv0294/tam with Rv2877c/-

Normalized LFCs for Rv0294/tam:
(description and provenance of datasets)

	Rv0294/tam	Rv2877c/-
Fe_supp_jason_reseq	0.096	0.84
low_pH_jason_reseq	-0.729	-0.875
NO_jason_reseq	-1.257	-0.37
B6_jason_reseq	0.226	0.246
MHCII_jason_reseq	-0.047	0.553
Isoniazid02	-0.083	0.639
Rifampicin4	0.387	0.249
Ethambutol3	-0.069	1.203
Meropenem3	0.738	0.253
Vancomycin16	0.287	0.244
Rv2680_day32	-1.615	-0.482
H37Rv_KO_MarP	-0.205	0.1
hypoxia_3wks	-0.606	0.108
hypoxia_6wks	0.712	0.244
glycerol	-0.151	-0.455
cholesterol	-0.779	-0.311
AJ	0.138	0.047
Bibs02	0.507	-0.101
Bibs02c	-0.021	-0.189
BL6	-0.238	0.286
BL6a	0.534	0.009
BXD01	0.013	0.006
BXD010	0.366	0.633
BXD011	0.313	0.904
BXD03	1.136	0.451
BXD04	1.051	0.225
BXD05	0.874	1.019
BXD06	0.401	0.247
BXD07	0.747	0.223
BXD08	0.431	0.269
BXD09	0.444	0.25
CAST	-0.873	-0.127
CCcont	0.187	-0.219
DS01	-0.662	-0.068
DS02	0.172	0.432
DS04	-0.596	-0.176
DS0c	-0.209	0.237
GP01	0.142	-0.207
GP02	0.312	0.96
GP0c	-0.216	0.073
NOD	-0.513	-0.495
NZO	0.373	-0.225
PWK	-0.124	-0.196
H37Rv_KO_CtpC	-0.309	0.111
H37Rv_KO_CtpD	0.391	0.928
H37Rv_KO_Rv1272	-1.142	-0.346
H37Rv_KO_SugABC	0.702	0.471
H37Rv_KO_MbtN	-0.135	0.05
Trans05	-0.68	0.316
macrophage_unactivated	0.344	-0.234
IL1	0.558	0.534
Rapamycin	0.31	0.654
Tcell	-0.173	0.215
GMCSF	0.288	0.552
IFNab	0.206	0.493
IFNg	0.502	0.273
IFNg_GMCSF1	0.962	0.443
Rv1432_day32	0.113	0.083
Rv1565c_day32	-0.49	0.311
secA2_input	0.765	-0.069
delta_Rv3594	0.385	0.02
delta_Rv3717	-0.267	0.198
delta_Rv3811	-0.291	-0.399
delta_Rv0954	-0.689	-0.079
PonA1	-0.594	0.47
EccD1_KO	0.645	0.766
EspI_KO	0.91	0.282
PE35_KO	0.54	0.831
PPE68_KO	0.118	0.317
glycerol2	0.128	0.426
lignocerate	0.736	0.508
oleate	-0.476	-0.023
phosphatidylcholine	-0.679	0.38
acetate	0.766	-0.209
glucAc	0.87	0.025
Rv0950ko	0.694	0.341
Rv1096ko	0.163	0.139
Rv3684ko	0.0	0.37
delta_otsA_trehalose	0.475	0.55