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 Rv0751c/mmsB:

update plot	correlation	link to info on gene
Rv0906/-	(cc=0.4072)	info on Rv0906/-
Rv2497c/bkdA	(cc=0.3935)	info on Rv2497c/bkdA
Rv1498c/-	(cc=0.3933)	info on Rv1498c/-
Rv1106c/-	(cc=0.3873)	info on Rv1106c/-
Rv0479c/-	(cc=0.3837)	info on Rv0479c/-
Rv0596c/vapB4	(cc=0.3813)	info on Rv0596c/vapB4
Rv0934/pstS1	(cc=0.3776)	info on Rv0934/pstS1
Rv1489A/-	(cc=0.3772)	info on Rv1489A/-
Rv0789c/-	(cc=0.3762)	info on Rv0789c/-
Rv1473A/-	(cc=0.375)	info on Rv1473A/-

Correlation of Rv0751c/mmsB with Rv1106c/-

Normalized LFCs for Rv0751c/mmsB:
(description and provenance of datasets)

	Rv0751c/mmsB	Rv1106c/-
Fe_supp_jason_reseq	1.301	-0.227
low_pH_jason_reseq	2.32	0.035
NO_jason_reseq	0.515	-0.079
B6_jason_reseq	-0.483	-1.55
MHCII_jason_reseq	0.703	-1.269
Isoniazid02	-1.295	-0.677
Rifampicin4	-0.929	-0.42
Ethambutol3	-1.402	-0.714
Meropenem3	-0.446	-0.527
Vancomycin16	-1.175	-0.284
Rv2680_day32	-0.28	-1.111
H37Rv_KO_MarP	-0.154	-0.217
hypoxia_3wks	-0.482	0.183
hypoxia_6wks	-0.495	0.248
glycerol	-0.913	-0.667
cholesterol	-0.302	-1.683
AJ	-0.079	-0.555
Bibs02	0.498	0.348
Bibs02c	0.243	-0.203
BL6	0.403	0.189
BL6a	1.062	-0.095
BXD01	0.732	-0.498
BXD010	0.161	0.204
BXD011	0.325	-0.335
BXD03	0.143	-0.371
BXD04	-0.381	-0.348
BXD05	-0.356	-0.739
BXD06	0.474	-0.102
BXD07	0.424	-0.339
BXD08	0.1	-1.02
BXD09	0.442	0.076
CAST	0.025	-0.524
CCcont	1.24	0.475
DS01	0.366	-0.565
DS02	-1.098	-0.325
DS04	-0.843	-0.729
DS0c	0.377	-0.889
GP01	-0.807	-0.345
GP02	0.212	0.444
GP0c	0.274	-0.551
NOD	-0.726	-0.844
NZO	0.25	-0.331
PWK	-0.159	0.158
H37Rv_KO_CtpC	0.22	-0.118
H37Rv_KO_CtpD	-0.918	-0.085
H37Rv_KO_Rv1272	0.121	0.852
H37Rv_KO_SugABC	1.18	0.443
H37Rv_KO_MbtN	-1.842	0.083
Trans05	1.28	0.388
macrophage_unactivated	0.287	0.23
IL1	0.522	0.899
Rapamycin	0.641	0.666
Tcell	-0.124	0.479
GMCSF	-0.364	0.333
IFNab	1.052	1.333
IFNg	-0.369	0.46
IFNg_GMCSF1	0.808	0.346
Rv1432_day32	-0.176	-1.201
Rv1565c_day32	-1.279	-0.842
secA2_input	0.801	-0.365
delta_Rv3594	-0.84	0.191
delta_Rv3717	0.513	0.388
delta_Rv3811	0.735	0.25
delta_Rv0954	-0.601	-0.461
PonA1	-0.359	-0.141
EccD1_KO	-0.207	0.546
EspI_KO	1.654	0.53
PE35_KO	1.073	1.073
PPE68_KO	0.816	0.905
glycerol2	0.384	0.405
lignocerate	1.109	0.381
oleate	0.337	0.482
phosphatidylcholine	0.396	0.202
acetate	0.396	-0.078
glucAc	1.759	0.053
Rv0950ko	-0.28	0.302
Rv1096ko	-0.103	0.582
Rv3684ko	0.75	0.793
delta_otsA_trehalose	-0.868	0.395