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 Rv0498/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3560c/fadE30	(cc=0.4896)	info on Rv3560c/fadE30
Rv3542c/-	(cc=0.4238)	info on Rv3542c/-
Rv0724/sppA	(cc=0.3996)	info on Rv0724/sppA
Rv1417/-	(cc=0.3967)	info on Rv1417/-
Rv0971c/echA7	(cc=0.3933)	info on Rv0971c/echA7
Rv3705c/-	(cc=0.3913)	info on Rv3705c/-
Rv0912/-	(cc=0.3896)	info on Rv0912/-
Rv2734/-	(cc=0.385)	info on Rv2734/-
Rv3502c/-	(cc=0.3818)	info on Rv3502c/-
Rv0096/PPE1	(cc=0.3807)	info on Rv0096/PPE1

Correlation of Rv0498/- with Rv3560c/fadE30

Normalized LFCs for Rv0498/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0498/-	Rv3560c/fadE30
Fe_supp_jason_reseq	0.172	0.096
low_pH_jason_reseq	-2.11	-0.751
NO_jason_reseq	1.055	0.097
B6_jason_reseq	-2.047	-2.522
MHCII_jason_reseq	0.483	-2.793
Isoniazid02	0.751	-0.249
Rifampicin4	0.839	-0.596
Ethambutol3	0.534	-0.67
Meropenem3	0.869	0.28
Vancomycin16	0.08	-0.427
Rv2680_day32	0.197	-1.864
H37Rv_KO_MarP	0.127	-0.103
hypoxia_3wks	0.044	0.801
hypoxia_6wks	-0.457	-0.125
glycerol	0.944	0.682
cholesterol	-0.195	-3.559
AJ	-0.901	-3.037
Bibs02	-0.966	-4.145
Bibs02c	-1.393	-4.568
BL6	0.856	-1.436
BL6a	-0.894	-3.769
BXD01	-0.114	-1.065
BXD010	-0.235	0.442
BXD011	-0.43	-1.353
BXD03	-0.201	-0.495
BXD04	0.044	0.184
BXD05	0.086	-1.762
BXD06	0.071	-2.059
BXD07	-0.861	-1.103
BXD08	-0.471	-0.732
BXD09	0.503	-1.004
CAST	-2.334	-3.454
CCcont	0.515	0.156
DS01	-0.058	-2.642
DS02	0.373	1.672
DS04	0.022	-3.466
DS0c	0.437	-2.303
GP01	0.823	-1.364
GP02	1.955	-1.533
GP0c	0.493	-0.165
NOD	0.487	0.109
NZO	-0.774	-1.133
PWK	-1.671	-3.615
H37Rv_KO_CtpC	0.019	-2.37
H37Rv_KO_CtpD	-0.449	-1.381
H37Rv_KO_Rv1272	-0.352	0.583
H37Rv_KO_SugABC	1.538	0.869
H37Rv_KO_MbtN	-0.29	-1.504
Trans05	-0.203	-0.305
macrophage_unactivated	0.751	1.067
IL1	-0.163	-0.394
Rapamycin	0.586	0.417
Tcell	-1.121	-2.281
GMCSF	1.154	1.613
IFNab	1.587	1.418
IFNg	0.331	-0.174
IFNg_GMCSF1	0.525	0.902
Rv1432_day32	0.481	-2.095
Rv1565c_day32	-1.072	-2.458
secA2_input	0.338	-0.806
delta_Rv3594	-0.05	-1.291
delta_Rv3717	-0.389	-1.19
delta_Rv3811	-1.029	-1.112
delta_Rv0954	0.106	-1.31
PonA1	-0.32	-0.724
EccD1_KO	-0.398	0.934
EspI_KO	0.299	0.756
PE35_KO	-0.289	0.659
PPE68_KO	-0.729	0.0
glycerol2	-0.157	-1.899
lignocerate	-0.295	-2.255
oleate	-1.153	-1.575
phosphatidylcholine	-0.539	-1.774
acetate	-0.213	-2.671
glucAc	0.016	-1.687
Rv0950ko	-0.534	-0.648
Rv1096ko	-0.048	1.034
Rv3684ko	-0.946	0.645
delta_otsA_trehalose	0.611	0.124