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 Rv3054c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1857/modA	(cc=0.4775)	info on Rv1857/modA
Rv2390c/-	(cc=0.4389)	info on Rv2390c/-
Rv3323c/moaX	(cc=0.4112)	info on Rv3323c/moaX
Rv1373/-	(cc=0.4036)	info on Rv1373/-
Rv3688c/-	(cc=0.4026)	info on Rv3688c/-
Rv3011c/gatA	(cc=0.4021)	info on Rv3011c/gatA
Rv1947/-	(cc=0.384)	info on Rv1947/-
Rv3687c/rsfB	(cc=0.3729)	info on Rv3687c/rsfB
Rv3194c/-	(cc=0.3726)	info on Rv3194c/-
Rv2480c/-	(cc=0.3698)	info on Rv2480c/-

Correlation of Rv3054c/- with Rv1857/modA

Normalized LFCs for Rv3054c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv3054c/-	Rv1857/modA
Fe_supp_jason_reseq	-0.774	0.281
low_pH_jason_reseq	-0.999	-0.127
NO_jason_reseq	0.263	1.433
B6_jason_reseq	-0.813	-1.17
MHCII_jason_reseq	-0.989	0.349
Isoniazid02	-1.087	-2.746
Rifampicin4	0.0	0.736
Ethambutol3	-0.815	-1.959
Meropenem3	-1.358	-1.672
Vancomycin16	-0.485	-0.974
Rv2680_day32	-0.096	-0.597
H37Rv_KO_MarP	0.123	0.437
hypoxia_3wks	-0.032	-0.108
hypoxia_6wks	0.668	-0.065
glycerol	-1.112	-1.15
cholesterol	-0.164	-0.238
AJ	0.624	-0.049
Bibs02	-0.903	-1.208
Bibs02c	-0.906	0.394
BL6	0.238	0.128
BL6a	-0.069	0.538
BXD01	-0.106	-0.309
BXD010	0.956	0.409
BXD011	-0.208	-0.259
BXD03	-0.11	-0.499
BXD04	0.006	-0.43
BXD05	1.064	-0.113
BXD06	-0.06	-0.509
BXD07	-0.187	-0.272
BXD08	0.032	-0.382
BXD09	-0.114	-0.169
CAST	0.761	-0.444
CCcont	-0.26	-0.018
DS01	-0.344	-0.974
DS02	-0.699	0.337
DS04	-1.099	-0.292
DS0c	-0.572	-0.514
GP01	0.689	0.308
GP02	0.911	-0.086
GP0c	0.038	-0.462
NOD	-0.216	-0.662
NZO	0.467	-0.76
PWK	1.397	0.108
H37Rv_KO_CtpC	0.832	0.104
H37Rv_KO_CtpD	-1.26	0.453
H37Rv_KO_Rv1272	-1.368	0.377
H37Rv_KO_SugABC	1.834	1.038
H37Rv_KO_MbtN	0.201	-0.681
Trans05	0.184	-0.04
macrophage_unactivated	1.417	0.281
IL1	0.718	0.712
Rapamycin	1.04	0.761
Tcell	0.808	0.248
GMCSF	0.069	0.454
IFNab	0.541	0.472
IFNg	0.692	2.306
IFNg_GMCSF1	3.284	1.326
Rv1432_day32	-1.405	-0.104
Rv1565c_day32	0.613	-0.63
secA2_input	-2.016	-0.819
delta_Rv3594	0.257	0.236
delta_Rv3717	-0.228	-0.232
delta_Rv3811	0.086	0.436
delta_Rv0954	0.956	0.663
PonA1	0.295	0.152
EccD1_KO	-0.809	0.0
EspI_KO	-0.214	0.973
PE35_KO	-0.493	-0.446
PPE68_KO	-0.71	-0.864
glycerol2	0.433	-0.293
lignocerate	0.709	-0.393
oleate	-0.313	0.068
phosphatidylcholine	0.613	0.169
acetate	0.208	-0.379
glucAc	0.718	-0.726
Rv0950ko	0.359	0.16
Rv1096ko	0.214	0.377
Rv3684ko	-0.665	-1.123
delta_otsA_trehalose	-0.093	-0.422