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 Rv0605/-

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

	Rv0294/tam	Rv0605/-
Fe_supp_jason_reseq	0.096	-0.995
low_pH_jason_reseq	-0.729	-0.028
NO_jason_reseq	-1.257	-0.215
B6_jason_reseq	0.226	-0.115
MHCII_jason_reseq	-0.047	0.297
Isoniazid02	-0.083	-0.274
Rifampicin4	0.387	0.195
Ethambutol3	-0.069	-0.371
Meropenem3	0.738	-0.589
Vancomycin16	0.287	-0.119
Rv2680_day32	-1.615	-0.777
H37Rv_KO_MarP	-0.205	0.391
hypoxia_3wks	-0.606	-0.159
hypoxia_6wks	0.712	-0.478
glycerol	-0.151	0.127
cholesterol	-0.779	0.526
AJ	0.138	-0.207
Bibs02	0.507	-0.038
Bibs02c	-0.021	0.708
BL6	-0.238	0.372
BL6a	0.534	0.194
BXD01	0.013	0.018
BXD010	0.366	-0.298
BXD011	0.313	1.443
BXD03	1.136	0.08
BXD04	1.051	-0.205
BXD05	0.874	0.244
BXD06	0.401	0.109
BXD07	0.747	0.549
BXD08	0.431	0.241
BXD09	0.444	0.128
CAST	-0.873	-0.319
CCcont	0.187	0.223
DS01	-0.662	-0.099
DS02	0.172	0.117
DS04	-0.596	-0.115
DS0c	-0.209	0.165
GP01	0.142	0.185
GP02	0.312	0.345
GP0c	-0.216	0.099
NOD	-0.513	0.22
NZO	0.373	0.152
PWK	-0.124	-0.041
H37Rv_KO_CtpC	-0.309	-0.399
H37Rv_KO_CtpD	0.391	1.48
H37Rv_KO_Rv1272	-1.142	-0.807
H37Rv_KO_SugABC	0.702	0.127
H37Rv_KO_MbtN	-0.135	-0.069
Trans05	-0.68	-0.126
macrophage_unactivated	0.344	0.306
IL1	0.558	1.323
Rapamycin	0.31	1.335
Tcell	-0.173	0.316
GMCSF	0.288	0.919
IFNab	0.206	0.493
IFNg	0.502	0.583
IFNg_GMCSF1	0.962	0.786
Rv1432_day32	0.113	0.348
Rv1565c_day32	-0.49	0.022
secA2_input	0.765	0.011
delta_Rv3594	0.385	-0.503
delta_Rv3717	-0.267	0.186
delta_Rv3811	-0.291	-0.778
delta_Rv0954	-0.689	-0.32
PonA1	-0.594	-0.83
EccD1_KO	0.645	0.714
EspI_KO	0.91	0.553
PE35_KO	0.54	1.275
PPE68_KO	0.118	0.733
glycerol2	0.128	0.502
lignocerate	0.736	1.359
oleate	-0.476	-0.024
phosphatidylcholine	-0.679	0.926
acetate	0.766	0.638
glucAc	0.87	1.051
Rv0950ko	0.694	0.847
Rv1096ko	0.163	1.056
Rv3684ko	0.0	1.205
delta_otsA_trehalose	0.475	-0.234