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 Rv1473A/-

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

	Rv0751c/mmsB	Rv1473A/-
Fe_supp_jason_reseq	1.301	-0.897
low_pH_jason_reseq	2.32	0.291
NO_jason_reseq	0.515	0.719
B6_jason_reseq	-0.483	0.16
MHCII_jason_reseq	0.703	0.385
Isoniazid02	-1.295	0.048
Rifampicin4	-0.929	-0.953
Ethambutol3	-1.402	-0.727
Meropenem3	-0.446	-0.541
Vancomycin16	-1.175	-0.255
Rv2680_day32	-0.28	-0.036
H37Rv_KO_MarP	-0.154	-0.103
hypoxia_3wks	-0.482	-0.933
hypoxia_6wks	-0.495	0.269
glycerol	-0.913	-0.884
cholesterol	-0.302	0.169
AJ	-0.079	0.64
Bibs02	0.498	1.286
Bibs02c	0.243	-1.005
BL6	0.403	2.39
BL6a	1.062	1.435
BXD01	0.732	1.282
BXD010	0.161	1.92
BXD011	0.325	1.366
BXD03	0.143	1.353
BXD04	-0.381	1.198
BXD05	-0.356	1.913
BXD06	0.474	1.464
BXD07	0.424	1.64
BXD08	0.1	2.033
BXD09	0.442	1.338
CAST	0.025	0.537
CCcont	1.24	1.931
DS01	0.366	-0.755
DS02	-1.098	-1.191
DS04	-0.843	-0.656
DS0c	0.377	-0.693
GP01	-0.807	-0.715
GP02	0.212	0.658
GP0c	0.274	-1.093
NOD	-0.726	-1.03
NZO	0.25	-0.832
PWK	-0.159	-0.054
H37Rv_KO_CtpC	0.22	1.565
H37Rv_KO_CtpD	-0.918	-1.187
H37Rv_KO_Rv1272	0.121	0.584
H37Rv_KO_SugABC	1.18	1.846
H37Rv_KO_MbtN	-1.842	-1.155
Trans05	1.28	0.136
macrophage_unactivated	0.287	0.193
IL1	0.522	0.258
Rapamycin	0.641	0.721
Tcell	-0.124	0.218
GMCSF	-0.364	0.948
IFNab	1.052	0.511
IFNg	-0.369	1.531
IFNg_GMCSF1	0.808	1.326
Rv1432_day32	-0.176	0.343
Rv1565c_day32	-1.279	0.256
secA2_input	0.801	-0.423
delta_Rv3594	-0.84	0.231
delta_Rv3717	0.513	0.865
delta_Rv3811	0.735	-0.675
delta_Rv0954	-0.601	1.348
PonA1	-0.359	-1.749
EccD1_KO	-0.207	0.237
EspI_KO	1.654	0.856
PE35_KO	1.073	0.648
PPE68_KO	0.816	2.892
glycerol2	0.384	-0.671
lignocerate	1.109	0.52
oleate	0.337	-0.339
phosphatidylcholine	0.396	-0.057
acetate	0.396	0.244
glucAc	1.759	0.466
Rv0950ko	-0.28	1.031
Rv1096ko	-0.103	0.495
Rv3684ko	0.75	-0.082
delta_otsA_trehalose	-0.868	-0.332