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 Rv1349/irtB:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv1348/irtA	(cc=0.621)	info on Rv1348/irtA
Rv0470c/pcaA	(cc=0.5537)	info on Rv0470c/pcaA
Rv1286/cysN	(cc=0.4912)	info on Rv1286/cysN
Rv1285/cysD	(cc=0.4701)	info on Rv1285/cysD
Rv2680/-	(cc=0.4621)	info on Rv2680/-
Rv2334/cysK1	(cc=0.4577)	info on Rv2334/cysK1
Rv2581c/-	(cc=0.4564)	info on Rv2581c/-
Rv1845c/blaR	(cc=0.4542)	info on Rv1845c/blaR
Rv2901c/-	(cc=0.4518)	info on Rv2901c/-
Rv2894c/xerC	(cc=0.4446)	info on Rv2894c/xerC

Correlation of Rv1349/irtB with Rv1348/irtA

Normalized LFCs for Rv1349/irtB:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1349/irtB	Rv1348/irtA
Fe_supp_jason_reseq	1.847	2.452
low_pH_jason_reseq	2.844	1.233
NO_jason_reseq	-0.69	-0.845
B6_jason_reseq	-0.292	-0.496
MHCII_jason_reseq	-0.257	-0.572
Isoniazid02	-0.201	0.156
Rifampicin4	-0.374	0.0
Ethambutol3	-0.168	0.0
Meropenem3	-0.165	-0.138
Vancomycin16	-0.366	-0.305
Rv2680_day32	-0.131	-0.908
H37Rv_KO_MarP	-0.586	-1.123
hypoxia_3wks	-0.55	-0.502
hypoxia_6wks	0.0	0.0
glycerol	-0.856	-1.153
cholesterol	-0.614	-0.972
AJ	-0.983	-1.556
Bibs02	-0.273	0.446
Bibs02c	-0.887	-0.243
BL6	-0.53	-0.839
BL6a	-0.839	-0.356
BXD01	-0.552	-0.744
BXD010	-0.543	-0.859
BXD011	-0.412	-0.612
BXD03	-0.573	-0.772
BXD04	-0.4	-0.49
BXD05	-0.57	-0.903
BXD06	-0.566	-0.762
BXD07	-0.587	-0.79
BXD08	-0.564	-0.892
BXD09	-0.596	-0.943
CAST	-0.537	-1.106
CCcont	0.196	0.49
DS01	0.0	0.0
DS02	1.251	0.435
DS04	-0.453	-1.107
DS0c	0.0	0.53
GP01	-0.418	-0.662
GP02	-0.353	-0.558
GP0c	-0.551	-0.872
NOD	-0.524	-0.89
NZO	-0.465	-1.338
PWK	-0.831	-1.316
H37Rv_KO_CtpC	-0.379	-0.292
H37Rv_KO_CtpD	-0.41	-0.502
H37Rv_KO_Rv1272	-0.598	-0.805
H37Rv_KO_SugABC	-0.231	-0.565
H37Rv_KO_MbtN	-0.154	-0.495
Trans05	-0.423	-0.746
macrophage_unactivated	-0.436	-1.016
IL1	0.374	-0.297
Rapamycin	0.0	-0.307
Tcell	0.0	0.0
GMCSF	-0.364	-1.545
IFNab	-0.417	-0.973
IFNg	-0.369	-1.195
IFNg_GMCSF1	-0.434	-1.405
Rv1432_day32	-0.18	-0.884
Rv1565c_day32	0.0	-0.351
secA2_input	-1.061	0.0
delta_Rv3594	-1.436	-0.967
delta_Rv3717	-1.339	-1.881
delta_Rv3811	-1.224	-1.557
delta_Rv0954	-0.083	0.226
PonA1	0.792	0.621
EccD1_KO	-1.121	0.474
EspI_KO	-0.973	0.0
PE35_KO	0.983	1.779
PPE68_KO	-0.25	0.883
glycerol2	-1.153	-0.509
lignocerate	-1.296	-0.865
oleate	-1.704	-1.202
phosphatidylcholine	-1.153	-0.657
acetate	-1.368	0.0
glucAc	-1.1	-0.176
Rv0950ko	-0.844	0.609
Rv1096ko	0.483	0.416
Rv3684ko	-0.593	0.452
delta_otsA_trehalose	-0.881	0.294