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 Rv1342c/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv3684/-	(cc=0.3706)	info on Rv3684/-
Rv3025c/iscS	(cc=0.3221)	info on Rv3025c/iscS
Rv3032/-	(cc=0.3144)	info on Rv3032/-
Rv1932/tpx	(cc=0.3127)	info on Rv1932/tpx
Rv2949c/-	(cc=0.309)	info on Rv2949c/-
Rv1118c/-	(cc=0.2963)	info on Rv1118c/-
Rv3574/kstR	(cc=0.2937)	info on Rv3574/kstR
Rv2967c/pca	(cc=0.2926)	info on Rv2967c/pca
Rv0479c/-	(cc=0.289)	info on Rv0479c/-
Rv1562c/treZ	(cc=0.2794)	info on Rv1562c/treZ

Correlation of Rv1342c/- with Rv3684/-

Normalized LFCs for Rv1342c/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1342c/-	Rv3684/-
Fe_supp_jason_reseq	0.218	0.339
low_pH_jason_reseq	0.0	0.201
NO_jason_reseq	0.0	-0.242
B6_jason_reseq	0.0	-0.709
MHCII_jason_reseq	0.0	-0.206
Isoniazid02	0.0	0.592
Rifampicin4	0.0	-0.498
Ethambutol3	0.0	0.376
Meropenem3	0.0	-0.954
Vancomycin16	0.0	-0.17
Rv2680_day32	0.0	-1.084
H37Rv_KO_MarP	0.162	0.78
hypoxia_3wks	0.0	-0.04
hypoxia_6wks	0.0	-0.365
glycerol	0.0	-0.633
cholesterol	0.0	-0.27
AJ	0.0	-0.452
Bibs02	0.0	-1.518
Bibs02c	0.0	-2.128
BL6	0.0	-0.256
BL6a	0.0	-1.749
BXD01	0.0	-0.218
BXD010	0.0	-0.898
BXD011	0.243	-0.994
BXD03	0.0	-0.497
BXD04	0.0	-0.51
BXD05	0.0	-0.525
BXD06	0.0	-0.597
BXD07	0.0	-0.686
BXD08	0.0	-0.564
BXD09	0.0	-1.007
CAST	0.0	-1.058
CCcont	0.0	0.101
DS01	0.0	-1.201
DS02	0.0	-1.397
DS04	0.0	-1.713
DS0c	0.0	-1.075
GP01	0.0	-1.255
GP02	0.0	-1.252
GP0c	0.0	0.639
NOD	0.0	-1.287
NZO	0.0	0.205
PWK	0.0	-1.662
H37Rv_KO_CtpC	0.0	-0.805
H37Rv_KO_CtpD	0.0	0.527
H37Rv_KO_Rv1272	0.0	-0.533
H37Rv_KO_SugABC	0.0	-2.145
H37Rv_KO_MbtN	0.103	-0.524
Trans05	0.0	0.257
macrophage_unactivated	0.0	-0.42
IL1	0.0	-1.551
Rapamycin	0.0	-1.074
Tcell	0.0	-1.14
GMCSF	0.0	-0.114
IFNab	0.0	-0.263
IFNg	0.0	-0.195
IFNg_GMCSF1	0.0	-1.1
Rv1432_day32	0.0	-0.398
Rv1565c_day32	0.0	-0.439
secA2_input	0.424	1.146
delta_Rv3594	0.0	0.448
delta_Rv3717	0.0	0.306
delta_Rv3811	0.0	1.161
delta_Rv0954	-0.34	0.963
PonA1	0.372	0.376
EccD1_KO	-0.414	-0.46
EspI_KO	0.328	-0.339
PE35_KO	1.21	0.111
PPE68_KO	-0.403	-0.448
glycerol2	0.0	0.797
lignocerate	0.0	0.426
oleate	0.0	0.869
phosphatidylcholine	0.0	0.511
acetate	0.0	-0.354
glucAc	0.0	-0.254
Rv0950ko	0.669	0.443
Rv1096ko	0.347	0.226
Rv3684ko	-0.861	-5.361
delta_otsA_trehalose	0.564	-1.142