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 Rv0987/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1676/-	(cc=0.5034)	info on Rv1676/-
Rv1950c/-	(cc=0.4754)	info on Rv1950c/-
Rv2958c/-	(cc=0.4701)	info on Rv2958c/-
Rv3288c/usfY	(cc=0.4632)	info on Rv3288c/usfY
Rv2253/-	(cc=0.4501)	info on Rv2253/-
Rv3643/-	(cc=0.4366)	info on Rv3643/-
Rv1585c/-	(cc=0.4315)	info on Rv1585c/-
Rv3595c/PE_PGRS59	(cc=0.4292)	info on Rv3595c/PE_PGRS59
Rv1145/mmpL13a	(cc=0.4285)	info on Rv1145/mmpL13a
Rv3109/moaA1	(cc=0.4282)	info on Rv3109/moaA1

Correlation of Rv0987/- with Rv1676/-

Normalized LFCs for Rv0987/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0987/-	Rv1676/-
Fe_supp_jason_reseq	0.601	-0.818
low_pH_jason_reseq	-0.363	0.34
NO_jason_reseq	-0.78	0.533
B6_jason_reseq	-0.745	-0.411
MHCII_jason_reseq	-0.373	0.103
Isoniazid02	-0.087	0.268
Rifampicin4	-0.601	0.726
Ethambutol3	0.0	0.039
Meropenem3	1.18	0.803
Vancomycin16	-0.411	0.99
Rv2680_day32	-0.344	-0.393
H37Rv_KO_MarP	0.356	1.507
hypoxia_3wks	0.187	0.0
hypoxia_6wks	-0.102	0.808
glycerol	-0.363	1.181
cholesterol	-0.409	-0.118
AJ	0.185	1.062
Bibs02	0.407	0.138
Bibs02c	-0.747	0.85
BL6	-0.266	-0.138
BL6a	-0.56	0.502
BXD01	-0.322	-0.695
BXD010	-0.731	-0.8
BXD011	-0.557	-0.34
BXD03	-0.709	-1.209
BXD04	0.0	-0.508
BXD05	0.299	-0.148
BXD06	-0.477	-1.465
BXD07	-0.342	-0.865
BXD08	-0.475	-1.794
BXD09	-0.397	-1.256
CAST	0.612	0.853
CCcont	0.519	0.285
DS01	0.188	1.381
DS02	-0.187	2.105
DS04	0.0	0.753
DS0c	0.173	1.425
GP01	-1.031	-0.527
GP02	0.636	0.603
GP0c	-0.569	0.16
NOD	0.234	-0.381
NZO	0.053	0.587
PWK	0.347	-0.053
H37Rv_KO_CtpC	0.804	0.309
H37Rv_KO_CtpD	1.081	2.042
H37Rv_KO_Rv1272	1.151	1.968
H37Rv_KO_SugABC	1.081	1.851
H37Rv_KO_MbtN	0.561	1.596
Trans05	-0.113	1.077
macrophage_unactivated	0.275	-1.502
IL1	-1.056	-2.966
Rapamycin	-0.285	-3.069
Tcell	-0.15	-2.704
GMCSF	-0.792	-2.64
IFNab	-0.907	-3.607
IFNg	-0.951	-3.188
IFNg_GMCSF1	-1.119	-2.13
Rv1432_day32	0.579	1.46
Rv1565c_day32	0.523	0.36
secA2_input	-0.582	-0.568
delta_Rv3594	-0.239	-0.396
delta_Rv3717	-1.305	-0.615
delta_Rv3811	-0.564	-1.981
delta_Rv0954	0.138	0.194
PonA1	0.043	0.386
EccD1_KO	0.0	1.168
EspI_KO	-0.197	1.372
PE35_KO	-0.633	1.607
PPE68_KO	-0.221	1.302
glycerol2	0.736	0.581
lignocerate	0.202	0.843
oleate	0.364	-0.163
phosphatidylcholine	0.36	0.542
acetate	-0.12	1.15
glucAc	-0.236	1.052
Rv0950ko	0.199	-1.33
Rv1096ko	-0.425	0.075
Rv3684ko	-0.226	0.0
delta_otsA_trehalose	0.866	-0.232