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 Rv2881c/cdsA:

update plot	correlation	link to info on gene
Rv1673c/-	(cc=0.5914)	info on Rv1673c/-
Rv1962A/vapB35	(cc=0.5888)	info on Rv1962A/vapB35
Rv2673/aftC	(cc=0.5634)	info on Rv2673/aftC
Rv2428/ahpC	(cc=0.553)	info on Rv2428/ahpC
Rv2303c/-	(cc=0.549)	info on Rv2303c/-
Rv2775/-	(cc=0.5309)	info on Rv2775/-
Rv2818c/-	(cc=0.5234)	info on Rv2818c/-
Rv2063/mazE7	(cc=0.5188)	info on Rv2063/mazE7
Rv2500c/fadE19	(cc=0.5124)	info on Rv2500c/fadE19
Rv2267c/-	(cc=0.5086)	info on Rv2267c/-

Correlation of Rv2881c/cdsA with Rv2303c/-

Normalized LFCs for Rv2881c/cdsA:
(description and provenance of datasets)

	Rv2881c/cdsA	Rv2303c/-
Fe_supp_jason_reseq	0.0	-0.186
low_pH_jason_reseq	0.284	0.269
NO_jason_reseq	-1.42	0.0
B6_jason_reseq	-0.103	0.047
MHCII_jason_reseq	-0.663	0.088
Isoniazid02	0.0	0.111
Rifampicin4	0.0	-0.195
Ethambutol3	0.0	0.507
Meropenem3	0.0	0.864
Vancomycin16	0.366	0.0
Rv2680_day32	-0.131	0.163
H37Rv_KO_MarP	-0.291	0.134
hypoxia_3wks	0.0	0.439
hypoxia_6wks	0.0	0.23
glycerol	-0.202	0.452
cholesterol	-0.145	0.196
AJ	-0.232	0.355
Bibs02	-0.183	-0.176
Bibs02c	-0.209	-0.056
BL6	-0.125	0.37
BL6a	0.901	0.076
BXD01	0.328	0.184
BXD010	1.098	0.136
BXD011	2.555	0.401
BXD03	0.0	-0.036
BXD04	-0.124	0.896
BXD05	1.667	0.786
BXD06	0.687	0.447
BXD07	0.126	0.476
BXD08	0.431	0.101
BXD09	0.802	0.215
CAST	0.581	0.245
CCcont	0.261	0.019
DS01	0.216	0.121
DS02	0.704	-0.306
DS04	-0.194	0.394
DS0c	0.0	0.014
GP01	0.564	0.242
GP02	0.901	0.977
GP0c	1.788	0.067
NOD	1.731	0.74
NZO	-0.199	0.977
PWK	-0.196	0.429
H37Rv_KO_CtpC	0.637	0.768
H37Rv_KO_CtpD	1.951	0.523
H37Rv_KO_Rv1272	1.022	0.563
H37Rv_KO_SugABC	-0.099	0.293
H37Rv_KO_MbtN	-0.103	0.825
Trans05	2.824	0.981
macrophage_unactivated	-0.398	-0.638
IL1	-0.78	-0.839
Rapamycin	-0.387	0.114
Tcell	0.375	0.391
GMCSF	-0.333	-0.401
IFNab	-0.795	-0.587
IFNg	-0.703	-0.596
IFNg_GMCSF1	-0.826	-0.544
Rv1432_day32	0.0	0.27
Rv1565c_day32	0.0	-0.178
secA2_input	-0.348	-0.088
delta_Rv3594	-0.997	0.543
delta_Rv3717	0.081	-0.115
delta_Rv3811	-1.3	-0.497
delta_Rv0954	-0.274	-0.512
PonA1	-0.077	0.495
EccD1_KO	1.924	1.243
EspI_KO	0.633	0.924
PE35_KO	3.564	0.613
PPE68_KO	2.121	0.56
glycerol2	0.104	-0.167
lignocerate	-0.96	-0.46
oleate	-0.483	-0.139
phosphatidylcholine	-0.478	-0.38
acetate	-1.31	-0.08
glucAc	-0.456	-0.328
Rv0950ko	0.211	0.066
Rv1096ko	-0.706	-0.718
Rv3684ko	-0.766	0.026
delta_otsA_trehalose	-0.232	0.098