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 Rv1968/mce3C:

update plot	correlation	link to info on gene
Rv2611c/-	(cc=0.4559)	info on Rv2611c/-
Rv2922c/smc	(cc=0.43)	info on Rv2922c/smc
Rv0926c/-	(cc=0.4206)	info on Rv0926c/-
Rv3815c/-	(cc=0.4205)	info on Rv3815c/-
Rv3382c/lytB1	(cc=0.4132)	info on Rv3382c/lytB1
Rv1918c/PPE35	(cc=0.4116)	info on Rv1918c/PPE35
Rv0204c/-	(cc=0.4089)	info on Rv0204c/-
Rv0559c/-	(cc=0.4071)	info on Rv0559c/-
Rv2102/-	(cc=0.3987)	info on Rv2102/-
Rv1548c/PPE21	(cc=0.3942)	info on Rv1548c/PPE21

Correlation of Rv1968/mce3C with Rv1548c/PPE21

Normalized LFCs for Rv1968/mce3C:
(description and provenance of datasets)

	Rv1968/mce3C	Rv1548c/PPE21
Fe_supp_jason_reseq	0.185	0.44
low_pH_jason_reseq	-0.517	-0.494
NO_jason_reseq	1.066	0.399
B6_jason_reseq	0.038	-0.968
MHCII_jason_reseq	-0.863	-1.76
Isoniazid02	0.249	0.049
Rifampicin4	0.0	0.439
Ethambutol3	1.094	-0.533
Meropenem3	0.014	-0.073
Vancomycin16	-0.064	0.0
Rv2680_day32	-2.687	-0.368
H37Rv_KO_MarP	-0.58	0.268
hypoxia_3wks	-0.299	0.243
hypoxia_6wks	-1.171	-0.177
glycerol	0.237	0.143
cholesterol	0.461	0.268
AJ	-0.45	-0.467
Bibs02	-0.434	0.098
Bibs02c	0.311	-0.517
BL6	0.663	1.274
BL6a	0.294	0.753
BXD01	-0.967	0.409
BXD010	-0.023	0.83
BXD011	0.78	0.813
BXD03	0.955	0.677
BXD04	0.344	0.647
BXD05	1.175	1.082
BXD06	0.604	0.879
BXD07	0.659	1.053
BXD08	0.0	0.988
BXD09	0.833	1.13
CAST	-0.169	0.933
CCcont	0.103	0.861
DS01	0.625	0.043
DS02	0.959	-0.588
DS04	-0.18	0.035
DS0c	0.184	-1.042
GP01	0.481	0.92
GP02	0.534	1.1
GP0c	0.48	1.231
NOD	0.155	1.565
NZO	-1.03	0.072
PWK	0.843	0.139
H37Rv_KO_CtpC	1.191	1.99
H37Rv_KO_CtpD	1.252	1.77
H37Rv_KO_Rv1272	1.119	2.196
H37Rv_KO_SugABC	-0.072	1.088
H37Rv_KO_MbtN	0.036	2.146
Trans05	0.398	2.226
macrophage_unactivated	0.862	0.524
IL1	1.794	0.492
Rapamycin	0.0	0.193
Tcell	-0.355	0.401
GMCSF	0.62	1.159
IFNab	1.082	0.671
IFNg	1.08	1.013
IFNg_GMCSF1	0.936	1.071
Rv1432_day32	1.368	0.209
Rv1565c_day32	0.436	-0.22
secA2_input	-0.504	-0.512
delta_Rv3594	1.095	0.18
delta_Rv3717	0.21	0.088
delta_Rv3811	0.796	-0.311
delta_Rv0954	0.638	0.026
PonA1	0.309	-0.325
EccD1_KO	-1.352	-0.217
EspI_KO	0.194	-0.031
PE35_KO	-0.035	-0.128
PPE68_KO	-0.675	0.0
glycerol2	-0.82	-0.028
lignocerate	-0.1	0.564
oleate	-0.829	-0.362
phosphatidylcholine	-0.508	0.395
acetate	1.38	0.721
glucAc	0.81	0.657
Rv0950ko	0.103	0.229
Rv1096ko	0.202	-0.57
Rv3684ko	0.531	-0.789
delta_otsA_trehalose	-0.073	-0.25