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 Rv0015c/pknA:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0604/lpqO	(cc=0.4678)	info on Rv0604/lpqO
Rv1480/-	(cc=0.4445)	info on Rv1480/-
Rv2195/qcrA	(cc=0.4193)	info on Rv2195/qcrA
Rv0435c/-	(cc=0.4132)	info on Rv0435c/-
Rv0630c/recB	(cc=0.4121)	info on Rv0630c/recB
Rv0351/grpE	(cc=0.408)	info on Rv0351/grpE
Rv1355c/moeY	(cc=0.4031)	info on Rv1355c/moeY
Rv2486/echA14	(cc=0.3946)	info on Rv2486/echA14
Rv2238c/ahpE	(cc=0.3866)	info on Rv2238c/ahpE
Rv0329c/-	(cc=0.3847)	info on Rv0329c/-

Correlation of Rv0015c/pknA with Rv0604/lpqO

Normalized LFCs for Rv0015c/pknA:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0015c/pknA	Rv0604/lpqO
Fe_supp_jason_reseq	0.0	1.159
low_pH_jason_reseq	0.0	-1.474
NO_jason_reseq	-0.362	-2.195
B6_jason_reseq	-0.153	0.798
MHCII_jason_reseq	0.77	1.287
Isoniazid02	0.407	0.038
Rifampicin4	-0.942	0.347
Ethambutol3	-0.27	-0.17
Meropenem3	-0.417	0.048
Vancomycin16	0.512	0.0
Rv2680_day32	0.0	-0.525
H37Rv_KO_MarP	0.825	0.116
hypoxia_3wks	0.0	0.53
hypoxia_6wks	-0.288	-0.507
glycerol	1.463	1.27
cholesterol	0.463	0.077
AJ	1.407	0.729
Bibs02	1.695	1.249
Bibs02c	0.668	0.896
BL6	-0.439	0.144
BL6a	-0.154	0.027
BXD01	-0.328	0.39
BXD010	-0.45	-0.118
BXD011	0.0	-0.94
BXD03	-0.105	-0.115
BXD04	-0.312	-1.037
BXD05	-0.473	0.089
BXD06	-0.469	-0.78
BXD07	0.517	-0.46
BXD08	-0.467	0.509
BXD09	-0.494	-0.416
CAST	-0.179	-0.112
CCcont	-0.525	0.098
DS01	-0.183	0.731
DS02	-0.548	0.684
DS04	-0.15	0.839
DS0c	0.57	0.404
GP01	-0.347	0.0
GP02	-0.292	-0.262
GP0c	-0.457	-0.101
NOD	-0.361	-0.921
NZO	2.339	0.118
PWK	0.142	-0.124
H37Rv_KO_CtpC	-0.571	-1.291
H37Rv_KO_CtpD	-0.445	-0.532
H37Rv_KO_Rv1272	-0.356	-1.06
H37Rv_KO_SugABC	-0.348	-1.802
H37Rv_KO_MbtN	-0.166	-0.819
Trans05	-0.459	0.462
macrophage_unactivated	0.398	1.18
IL1	0.715	0.027
Rapamycin	0.0	-0.792
Tcell	0.0	-0.274
GMCSF	-0.364	0.14
IFNab	-0.417	-0.342
IFNg	0.0	-1.085
IFNg_GMCSF1	2.231	2.124
Rv1432_day32	-0.139	1.395
Rv1565c_day32	0.0	1.058
secA2_input	-0.47	-0.221
delta_Rv3594	-2.022	-0.857
delta_Rv3717	-1.664	-1.05
delta_Rv3811	-1.31	-1.689
delta_Rv0954	-1.239	-0.724
PonA1	-1.928	-2.328
EccD1_KO	-1.003	0.506
EspI_KO	-0.2	-0.24
PE35_KO	-1.415	0.175
PPE68_KO	-0.71	0.637
glycerol2	0.0	0.726
lignocerate	0.0	1.142
oleate	0.0	1.353
phosphatidylcholine	0.0	1.452
acetate	0.0	0.843
glucAc	0.0	0.631
Rv0950ko	0.262	0.799
Rv1096ko	0.748	0.124
Rv3684ko	0.0	0.665
delta_otsA_trehalose	-0.854	1.318