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 Rv1055/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv2219A/-	(cc=0.5622)	info on Rv2219A/-
Rv1026/-	(cc=0.484)	info on Rv1026/-
Rv3084/lipR	(cc=0.4666)	info on Rv3084/lipR
Rv0677c/mmpS5	(cc=0.4637)	info on Rv0677c/mmpS5
Rv2133c/-	(cc=0.4446)	info on Rv2133c/-
Rv3334/-	(cc=0.4336)	info on Rv3334/-
Rv0150c/-	(cc=0.4309)	info on Rv0150c/-
Rv0330c/-	(cc=0.4145)	info on Rv0330c/-
Rv1028c/kdpD	(cc=0.412)	info on Rv1028c/kdpD
Rv1687c/-	(cc=0.4103)	info on Rv1687c/-

Correlation of Rv1055/- with Rv2219A/-

Normalized LFCs for Rv1055/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv1055/-	Rv2219A/-
Fe_supp_jason_reseq	-1.255	1.034
low_pH_jason_reseq	0.579	-0.391
NO_jason_reseq	0.063	0.919
B6_jason_reseq	1.11	0.078
MHCII_jason_reseq	-2.503	0.618
Isoniazid02	0.444	0.23
Rifampicin4	-1.362	0.273
Ethambutol3	-0.22	-0.105
Meropenem3	-0.464	0.025
Vancomycin16	0.218	0.47
Rv2680_day32	-2.73	0.0
H37Rv_KO_MarP	2.069	-0.645
hypoxia_3wks	0.678	-0.12
hypoxia_6wks	0.269	-0.612
glycerol	-1.204	-2.256
cholesterol	0.324	0.718
AJ	0.477	0.277
Bibs02	-1.325	-2.963
Bibs02c	-0.252	-1.928
BL6	-1.995	1.874
BL6a	0.172	-0.521
BXD01	-2.078	-0.257
BXD010	-1.799	-1.896
BXD011	-0.059	-0.301
BXD03	1.511	0.212
BXD04	-1.537	0.502
BXD05	-1.32	0.235
BXD06	-0.422	-0.087
BXD07	-1.529	0.349
BXD08	-1.653	0.854
BXD09	-0.783	0.233
CAST	0.474	0.542
CCcont	-2.382	0.164
DS01	1.456	1.042
DS02	-0.558	-3.039
DS04	0.249	1.862
DS0c	1.496	0.866
GP01	0.448	-1.198
GP02	-0.919	-0.122
GP0c	0.882	0.284
NOD	0.918	0.311
NZO	-1.035	-1.942
PWK	-1.512	-2.516
H37Rv_KO_CtpC	-2.019	-1.815
H37Rv_KO_CtpD	-1.673	-0.619
H37Rv_KO_Rv1272	-1.652	-3.378
H37Rv_KO_SugABC	-1.308	1.221
H37Rv_KO_MbtN	-1.541	-1.399
Trans05	2.805	0.612
macrophage_unactivated	-2.396	1.736
IL1	2.225	0.715
Rapamycin	4.996	1.004
Tcell	1.763	-0.495
GMCSF	2.891	1.568
IFNab	-0.417	-0.079
IFNg	0.644	0.673
IFNg_GMCSF1	1.973	-0.342
Rv1432_day32	0.0	0.22
Rv1565c_day32	0.0	0.0
secA2_input	-3.496	-2.505
delta_Rv3594	4.061	4.281
delta_Rv3717	3.989	4.031
delta_Rv3811	1.139	2.501
delta_Rv0954	4.679	2.821
PonA1	0.675	3.869
EccD1_KO	1.204	2.056
EspI_KO	0.265	0.642
PE35_KO	-1.435	0.245
PPE68_KO	-0.429	-0.112
glycerol2	-1.684	-1.34
lignocerate	-1.464	-0.173
oleate	-1.704	-0.895
phosphatidylcholine	-1.683	-0.884
acetate	-1.998	-0.377
glucAc	-1.242	-0.804
Rv0950ko	3.706	2.108
Rv1096ko	3.706	2.986
Rv3684ko	0.0	0.331
delta_otsA_trehalose	0.699	2.077