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 Rv0618/galTa:

update plot	correlation	link to info on gene
Rv0149/-	(cc=0.4613)	info on Rv0149/-
Rv2129c/-	(cc=0.4593)	info on Rv2129c/-
Rv0492c/-	(cc=0.4553)	info on Rv0492c/-
Rv2734/-	(cc=0.4515)	info on Rv2734/-
Rv2389c/rpfD	(cc=0.4491)	info on Rv2389c/rpfD
Rv0036c/-	(cc=0.425)	info on Rv0036c/-
Rv1949c/-	(cc=0.4192)	info on Rv1949c/-
Rv3705c/-	(cc=0.4104)	info on Rv3705c/-
Rv0408/pta	(cc=0.405)	info on Rv0408/pta
Rv0085/hycP	(cc=0.4043)	info on Rv0085/hycP

Correlation of Rv0618/galTa with Rv0149/-

Normalized LFCs for Rv0618/galTa:
(description and provenance of datasets)

	Rv0618/galTa	Rv0149/-
Fe_supp_jason_reseq	1.384	0.456
low_pH_jason_reseq	-0.788	-0.174
NO_jason_reseq	1.121	0.344
B6_jason_reseq	-1.428	-0.072
MHCII_jason_reseq	0.111	-0.111
Isoniazid02	0.202	0.46
Rifampicin4	0.596	0.463
Ethambutol3	0.914	1.317
Meropenem3	2.086	2.06
Vancomycin16	0.785	0.406
Rv2680_day32	0.0	0.49
H37Rv_KO_MarP	1.023	0.593
hypoxia_3wks	-0.658	0.152
hypoxia_6wks	-0.532	-0.027
glycerol	1.442	-0.278
cholesterol	-0.03	-0.034
AJ	-1.368	0.576
Bibs02	-0.513	0.282
Bibs02c	0.427	0.323
BL6	-0.53	1.501
BL6a	-0.169	0.651
BXD01	1.083	0.846
BXD010	-0.054	0.984
BXD011	0.238	1.073
BXD03	-0.241	0.429
BXD04	1.268	0.999
BXD05	-0.341	1.11
BXD06	0.203	1.007
BXD07	0.082	0.966
BXD08	-0.446	0.815
BXD09	0.526	0.913
CAST	-0.302	0.2
CCcont	-0.936	0.804
DS01	0.186	-0.017
DS02	-0.336	0.065
DS04	-1.29	0.458
DS0c	-0.284	0.512
GP01	2.161	0.708
GP02	0.156	0.843
GP0c	1.475	0.413
NOD	-1.674	-0.877
NZO	-0.308	0.422
PWK	-2.136	0.072
H37Rv_KO_CtpC	-0.068	0.96
H37Rv_KO_CtpD	0.781	0.992
H37Rv_KO_Rv1272	0.445	0.772
H37Rv_KO_SugABC	0.851	0.68
H37Rv_KO_MbtN	1.755	0.467
Trans05	1.168	0.547
macrophage_unactivated	-0.079	0.413
IL1	1.376	0.181
Rapamycin	0.365	0.144
Tcell	0.081	0.218
GMCSF	1.41	0.665
IFNab	-0.233	0.846
IFNg	0.78	0.5
IFNg_GMCSF1	0.446	0.663
Rv1432_day32	1.356	1.199
Rv1565c_day32	0.0	-0.464
secA2_input	-0.487	-0.587
delta_Rv3594	-0.555	0.06
delta_Rv3717	0.419	0.296
delta_Rv3811	0.077	-0.152
delta_Rv0954	0.823	0.388
PonA1	-0.871	0.067
EccD1_KO	0.227	-0.388
EspI_KO	-0.068	0.26
PE35_KO	-0.592	0.283
PPE68_KO	-0.563	-0.022
glycerol2	-1.24	-0.66
lignocerate	-0.826	-0.524
oleate	0.021	-0.24
phosphatidylcholine	0.083	-1.006
acetate	-1.872	-1.112
glucAc	-2.672	-0.999
Rv0950ko	-0.582	-0.024
Rv1096ko	-0.763	-0.268
Rv3684ko	2.24	-0.265
delta_otsA_trehalose	0.623	0.749