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 Rv2481c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2833c/ugpB	(cc=0.6002)	info on Rv2833c/ugpB
Rv3628/ppa	(cc=0.5758)	info on Rv3628/ppa
Rv0055/rpsR1	(cc=0.565)	info on Rv0055/rpsR1
Rv1765A/-	(cc=0.524)	info on Rv1765A/-
Rv3126c/-	(cc=0.5112)	info on Rv3126c/-
Rv2456c/-	(cc=0.5091)	info on Rv2456c/-
Rv0371c/-	(cc=0.5061)	info on Rv0371c/-
Rv2777c/-	(cc=0.5056)	info on Rv2777c/-
Rv0188/-	(cc=0.5018)	info on Rv0188/-
Rv2452c/-	(cc=0.4941)	info on Rv2452c/-

Correlation of Rv2481c/- with Rv2833c/ugpB

Normalized LFCs for Rv2481c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv2481c/-	Rv2833c/ugpB
Fe_supp_jason_reseq	0.434	-1.047
low_pH_jason_reseq	-0.092	-0.855
NO_jason_reseq	-0.593	-0.496
B6_jason_reseq	-0.233	-2.495
MHCII_jason_reseq	-0.51	-1.705
Isoniazid02	0.351	0.323
Rifampicin4	0.024	1.283
Ethambutol3	0.214	0.505
Meropenem3	0.055	0.497
Vancomycin16	0.703	0.939
Rv2680_day32	0.682	1.035
H37Rv_KO_MarP	-0.497	-0.188
hypoxia_3wks	0.08	0.0
hypoxia_6wks	0.921	-0.234
glycerol	0.159	-0.693
cholesterol	0.442	0.552
AJ	0.321	-0.541
Bibs02	-1.599	-0.736
Bibs02c	0.573	-1.429
BL6	1.853	1.972
BL6a	1.821	1.025
BXD01	0.866	0.8
BXD010	1.509	1.237
BXD011	1.004	0.812
BXD03	1.65	1.088
BXD04	0.4	0.67
BXD05	1.885	0.391
BXD06	1.123	0.91
BXD07	1.091	1.167
BXD08	1.263	1.509
BXD09	1.301	1.334
CAST	0.659	2.478
CCcont	1.896	1.651
DS01	-0.161	-0.551
DS02	0.663	0.699
DS04	-1.81	-0.905
DS0c	0.347	-0.506
GP01	0.995	-0.086
GP02	1.273	-0.568
GP0c	0.217	-0.237
NOD	0.407	0.0
NZO	-0.049	0.309
PWK	0.804	-0.915
H37Rv_KO_CtpC	0.701	1.177
H37Rv_KO_CtpD	-1.316	-1.086
H37Rv_KO_Rv1272	1.848	1.385
H37Rv_KO_SugABC	-1.683	-0.949
H37Rv_KO_MbtN	0.09	-0.625
Trans05	1.478	1.851
macrophage_unactivated	0.445	0.65
IL1	0.478	0.392
Rapamycin	0.359	0.921
Tcell	0.342	0.903
GMCSF	0.19	0.731
IFNab	0.366	0.163
IFNg	0.182	0.216
IFNg_GMCSF1	0.201	0.17
Rv1432_day32	0.013	-0.961
Rv1565c_day32	-0.142	-0.24
secA2_input	-0.509	0.095
delta_Rv3594	0.031	-0.402
delta_Rv3717	-1.226	-0.802
delta_Rv3811	-0.415	-0.651
delta_Rv0954	-0.849	-0.45
PonA1	-0.911	-0.799
EccD1_KO	0.635	-1.47
EspI_KO	0.508	0.091
PE35_KO	0.691	0.443
PPE68_KO	0.781	0.202
glycerol2	1.184	0.873
lignocerate	1.4	1.376
oleate	0.388	0.489
phosphatidylcholine	1.066	1.108
acetate	0.894	1.079
glucAc	0.948	1.205
Rv0950ko	0.434	0.582
Rv1096ko	-0.163	0.995
Rv3684ko	0.252	1.588
delta_otsA_trehalose	0.873	-1.327