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 Rv0124/PE_PGRS2:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0620/galK	(cc=0.4403)	info on Rv0620/galK
Rv0094c/-	(cc=0.424)	info on Rv0094c/-
Rv0279c/PE_PGRS4	(cc=0.42)	info on Rv0279c/PE_PGRS4
Rv0578c/PE_PGRS7	(cc=0.4139)	info on Rv0578c/PE_PGRS7
Rv3467/-	(cc=0.4137)	info on Rv3467/-
Rv1091/PE_PGRS22	(cc=0.4132)	info on Rv1091/PE_PGRS22
Rv3345c/PE_PGRS50	(cc=0.4093)	info on Rv3345c/PE_PGRS50
Rv0393/-	(cc=0.4032)	info on Rv0393/-
Rv1818c/PE_PGRS33	(cc=0.4028)	info on Rv1818c/PE_PGRS33
Rv1468c/PE_PGRS29	(cc=0.4008)	info on Rv1468c/PE_PGRS29

Correlation of Rv0124/PE_PGRS2 with Rv0620/galK

Normalized LFCs for Rv0124/PE_PGRS2:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0124/PE_PGRS2	Rv0620/galK
Fe_supp_jason_reseq	-0.627	-3.531
low_pH_jason_reseq	-0.284	-0.1
NO_jason_reseq	-0.525	-0.039
B6_jason_reseq	-0.542	-0.749
MHCII_jason_reseq	-0.477	-0.778
Isoniazid02	-0.535	0.154
Rifampicin4	0.671	1.075
Ethambutol3	1.019	3.874
Meropenem3	0.26	0.373
Vancomycin16	0.048	0.048
Rv2680_day32	-0.183	0.19
H37Rv_KO_MarP	-0.109	0.181
hypoxia_3wks	-0.407	-1.176
hypoxia_6wks	-1.155	-1.771
glycerol	0.674	1.774
cholesterol	-0.4	-1.049
AJ	0.59	0.212
Bibs02	0.874	-0.183
Bibs02c	0.239	0.097
BL6	-0.502	-0.337
BL6a	-0.156	-0.198
BXD01	1.066	0.278
BXD010	-0.764	-0.928
BXD011	-0.232	-0.062
BXD03	-0.107	0.0
BXD04	0.726	0.6
BXD05	0.55	-0.74
BXD06	-0.478	-0.28
BXD07	0.566	-0.213
BXD08	0.459	-0.533
BXD09	0.062	0.128
CAST	0.325	2.07
CCcont	0.15	0.633
DS01	0.139	0.505
DS02	0.797	1.626
DS04	1.285	-0.298
DS0c	-0.556	-1.024
GP01	0.393	0.783
GP02	1.174	0.326
GP0c	0.682	1.43
NOD	0.132	-0.109
NZO	1.591	-0.799
PWK	0.0	0.091
H37Rv_KO_CtpC	1.26	-0.249
H37Rv_KO_CtpD	-0.657	0.537
H37Rv_KO_Rv1272	0.701	0.881
H37Rv_KO_SugABC	-1.391	-0.817
H37Rv_KO_MbtN	-0.369	-0.747
Trans05	0.0	2.405
macrophage_unactivated	-0.11	0.35
IL1	-0.377	-0.175
Rapamycin	0.0	-0.773
Tcell	-0.87	0.0
GMCSF	-0.092	0.293
IFNab	-1.203	0.336
IFNg	0.756	1.072
IFNg_GMCSF1	-0.644	0.512
Rv1432_day32	0.205	0.713
Rv1565c_day32	0.036	0.193
secA2_input	1.393	1.655
delta_Rv3594	0.454	1.981
delta_Rv3717	0.03	2.475
delta_Rv3811	0.158	1.387
delta_Rv0954	0.062	1.603
PonA1	1.196	1.556
EccD1_KO	-0.164	-1.325
EspI_KO	-1.657	-2.036
PE35_KO	-0.939	0.201
PPE68_KO	-0.413	0.63
glycerol2	-0.128	1.131
lignocerate	-0.055	1.712
oleate	-0.043	-1.045
phosphatidylcholine	-0.41	0.95
acetate	0.768	1.835
glucAc	0.117	1.687
Rv0950ko	0.766	0.748
Rv1096ko	0.866	1.285
Rv3684ko	1.755	0.285
delta_otsA_trehalose	0.683	0.416