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 Rv0492A/-

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

	Rv0294/tam	Rv0492A/-
Fe_supp_jason_reseq	0.096	0.661
low_pH_jason_reseq	-0.729	-1.216
NO_jason_reseq	-1.257	0.0
B6_jason_reseq	0.226	-0.124
MHCII_jason_reseq	-0.047	-0.283
Isoniazid02	-0.083	-0.57
Rifampicin4	0.387	0.336
Ethambutol3	-0.069	0.169
Meropenem3	0.738	-0.207
Vancomycin16	0.287	0.011
Rv2680_day32	-1.615	-2.458
H37Rv_KO_MarP	-0.205	-0.429
hypoxia_3wks	-0.606	-0.032
hypoxia_6wks	0.712	-0.543
glycerol	-0.151	0.497
cholesterol	-0.779	-0.801
AJ	0.138	0.245
Bibs02	0.507	0.494
Bibs02c	-0.021	-0.456
BL6	-0.238	-0.227
BL6a	0.534	-0.06
BXD01	0.013	0.138
BXD010	0.366	1.003
BXD011	0.313	0.571
BXD03	1.136	0.105
BXD04	1.051	0.136
BXD05	0.874	-1.719
BXD06	0.401	-0.172
BXD07	0.747	0.22
BXD08	0.431	-0.384
BXD09	0.444	0.056
CAST	-0.873	-0.576
CCcont	0.187	0.574
DS01	-0.662	0.9
DS02	0.172	0.881
DS04	-0.596	0.358
DS0c	-0.209	0.354
GP01	0.142	-1.331
GP02	0.312	0.121
GP0c	-0.216	-0.884
NOD	-0.513	-0.342
NZO	0.373	0.29
PWK	-0.124	0.59
H37Rv_KO_CtpC	-0.309	-0.998
H37Rv_KO_CtpD	0.391	0.92
H37Rv_KO_Rv1272	-1.142	-1.261
H37Rv_KO_SugABC	0.702	1.319
H37Rv_KO_MbtN	-0.135	-0.369
Trans05	-0.68	-0.593
macrophage_unactivated	0.344	-0.227
IL1	0.558	-1.261
Rapamycin	0.31	-0.055
Tcell	-0.173	0.505
GMCSF	0.288	-0.459
IFNab	0.206	-0.484
IFNg	0.502	0.243
IFNg_GMCSF1	0.962	0.302
Rv1432_day32	0.113	0.146
Rv1565c_day32	-0.49	-1.003
secA2_input	0.765	-0.415
delta_Rv3594	0.385	-0.777
delta_Rv3717	-0.267	-0.408
delta_Rv3811	-0.291	-0.851
delta_Rv0954	-0.689	0.408
PonA1	-0.594	-0.32
EccD1_KO	0.645	-0.128
EspI_KO	0.91	1.061
PE35_KO	0.54	0.998
PPE68_KO	0.118	1.056
glycerol2	0.128	1.017
lignocerate	0.736	1.453
oleate	-0.476	-0.206
phosphatidylcholine	-0.679	0.906
acetate	0.766	1.371
glucAc	0.87	0.983
Rv0950ko	0.694	0.38
Rv1096ko	0.163	0.567
Rv3684ko	0.0	0.593
delta_otsA_trehalose	0.475	0.406