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 Rv1445c/devB:

update plot	correlation	link to info on gene
Rv0998/-	(cc=0.5231)	info on Rv0998/-
Rv2470/glbO	(cc=0.4825)	info on Rv2470/glbO
Rv3680/-	(cc=0.4788)	info on Rv3680/-
Rv1473/-	(cc=0.4776)	info on Rv1473/-
Rv2344c/dgt	(cc=0.472)	info on Rv2344c/dgt
Rv1963c/mce3R	(cc=0.4685)	info on Rv1963c/mce3R
Rv0038/-	(cc=0.4631)	info on Rv0038/-
Rv3754/tyrA	(cc=0.462)	info on Rv3754/tyrA
Rv1114/vapC32	(cc=0.4428)	info on Rv1114/vapC32
Rv1432/-	(cc=0.4421)	info on Rv1432/-

Correlation of Rv1445c/devB with Rv2470/glbO

Normalized LFCs for Rv1445c/devB:
(description and provenance of datasets)

	Rv1445c/devB	Rv2470/glbO
Fe_supp_jason_reseq	3.487	0.0
low_pH_jason_reseq	0.539	0.44
NO_jason_reseq	-1.089	0.0
B6_jason_reseq	-0.461	0.0
MHCII_jason_reseq	-0.663	0.0
Isoniazid02	0.422	1.455
Rifampicin4	0.412	0.271
Ethambutol3	-0.1	0.122
Meropenem3	6.0	0.528
Vancomycin16	-0.218	0.265
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.556	-0.586
hypoxia_3wks	-0.706	0.0
hypoxia_6wks	0.33	0.0
glycerol	1.403	0.709
cholesterol	0.435	0.509
AJ	0.797	0.232
Bibs02	1.751	0.0
Bibs02c	-0.399	0.887
BL6	-0.768	0.0
BL6a	0.0	0.696
BXD01	-0.552	0.0
BXD010	-0.787	0.0
BXD011	1.581	0.243
BXD03	0.076	0.258
BXD04	-0.42	0.124
BXD05	2.855	0.135
BXD06	-0.254	0.133
BXD07	0.475	0.0
BXD08	-0.079	0.133
BXD09	0.75	0.0
CAST	-1.185	0.23
CCcont	2.119	1.3
DS01	0.133	0.0
DS02	-1.119	0.0
DS04	-1.192	0.0
DS0c	2.875	0.596
GP01	0.492	0.0
GP02	-0.283	0.0
GP0c	-0.669	0.0
NOD	0.0	1.103
NZO	0.113	0.548
PWK	0.0	0.539
H37Rv_KO_CtpC	-0.835	0.0
H37Rv_KO_CtpD	-0.241	0.127
H37Rv_KO_Rv1272	-0.598	0.141
H37Rv_KO_SugABC	-0.26	0.099
H37Rv_KO_MbtN	-0.35	0.0
Trans05	-0.161	0.0
macrophage_unactivated	-2.273	0.0
IL1	-1.231	0.0
Rapamycin	-0.328	0.0
Tcell	-0.925	0.0
GMCSF	-1.096	0.0
IFNab	1.215	0.0
IFNg	-0.593	0.0
IFNg_GMCSF1	-1.756	0.0
Rv1432_day32	0.727	0.0
Rv1565c_day32	0.0	0.599
secA2_input	-0.775	-0.357
delta_Rv3594	3.284	0.402
delta_Rv3717	2.731	0.0
delta_Rv3811	3.123	0.0
delta_Rv0954	2.176	1.553
PonA1	1.981	1.154
EccD1_KO	2.263	1.194
EspI_KO	0.328	2.219
PE35_KO	1.383	2.917
PPE68_KO	2.937	3.52
glycerol2	-1.607	-0.82
lignocerate	-1.667	-1.425
oleate	-2.12	-1.659
phosphatidylcholine	-2.286	-2.007
acetate	1.24	-0.09
glucAc	1.081	0.157
Rv0950ko	-0.528	-0.715
Rv1096ko	-0.817	-2.177
Rv3684ko	-1.985	-0.609
delta_otsA_trehalose	0.61	1.751