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 Rv1026/-:

update plot	correlation	link to info on gene
Rv0150c/-	(cc=0.5282)	info on Rv0150c/-
Rv1055/-	(cc=0.484)	info on Rv1055/-
Rv2219A/-	(cc=0.4539)	info on Rv2219A/-
Rv1897c/-	(cc=0.4283)	info on Rv1897c/-
Rv0677c/mmpS5	(cc=0.4279)	info on Rv0677c/mmpS5
Rv0779c/-	(cc=0.4254)	info on Rv0779c/-
Rv1341/-	(cc=0.4149)	info on Rv1341/-
Rv3178/-	(cc=0.4143)	info on Rv3178/-
Rv0500A/-	(cc=0.4106)	info on Rv0500A/-
Rv0321/dcd	(cc=0.3947)	info on Rv0321/dcd

Correlation of Rv1026/- with Rv2219A/-

Normalized LFCs for Rv1026/-:
(description and provenance of datasets)

	Rv1026/-	Rv2219A/-
Fe_supp_jason_reseq	-0.715	1.034
low_pH_jason_reseq	2.175	-0.391
NO_jason_reseq	-0.633	0.919
B6_jason_reseq	-0.128	0.078
MHCII_jason_reseq	-1.213	0.618
Isoniazid02	0.146	0.23
Rifampicin4	1.394	0.273
Ethambutol3	0.235	-0.105
Meropenem3	0.12	0.025
Vancomycin16	-0.284	0.47
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	0.385	-0.645
hypoxia_3wks	0.339	-0.12
hypoxia_6wks	-0.606	-0.612
glycerol	0.451	-2.256
cholesterol	0.638	0.718
AJ	0.698	0.277
Bibs02	-1.069	-2.963
Bibs02c	0.293	-1.928
BL6	-0.845	1.874
BL6a	0.595	-0.521
BXD01	0.343	-0.257
BXD010	-0.749	-1.896
BXD011	-0.281	-0.301
BXD03	1.386	0.212
BXD04	0.372	0.502
BXD05	-0.216	0.235
BXD06	0.752	-0.087
BXD07	0.0	0.349
BXD08	0.243	0.854
BXD09	1.789	0.233
CAST	0.514	0.542
CCcont	-1.009	0.164
DS01	1.189	1.042
DS02	0.397	-3.039
DS04	0.354	1.862
DS0c	1.403	0.866
GP01	-0.667	-1.198
GP02	-0.562	-0.122
GP0c	1.693	0.284
NOD	-0.234	0.311
NZO	-0.101	-1.942
PWK	-0.557	-2.516
H37Rv_KO_CtpC	-0.461	-1.815
H37Rv_KO_CtpD	0.061	-0.619
H37Rv_KO_Rv1272	-1.093	-3.378
H37Rv_KO_SugABC	-0.579	1.221
H37Rv_KO_MbtN	-0.799	-1.399
Trans05	-0.883	0.612
macrophage_unactivated	1.49	1.736
IL1	-0.285	0.715
Rapamycin	0.902	1.004
Tcell	-0.313	-0.495
GMCSF	1.156	1.568
IFNab	0.139	-0.079
IFNg	0.577	0.673
IFNg_GMCSF1	0.418	-0.342
Rv1432_day32	1.265	0.22
Rv1565c_day32	0.0	0.0
secA2_input	-1.796	-2.505
delta_Rv3594	0.997	4.281
delta_Rv3717	2.702	4.031
delta_Rv3811	2.198	2.501
delta_Rv0954	0.925	2.821
PonA1	0.419	3.869
EccD1_KO	0.395	2.056
EspI_KO	-0.183	0.642
PE35_KO	-1.272	0.245
PPE68_KO	0.0	-0.112
glycerol2	-1.572	-1.34
lignocerate	-1.266	-0.173
oleate	0.308	-0.895
phosphatidylcholine	-1.144	-0.884
acetate	-2.331	-0.377
glucAc	-1.952	-0.804
Rv0950ko	-0.172	2.108
Rv1096ko	0.477	2.986
Rv3684ko	1.916	0.331
delta_otsA_trehalose	1.321	2.077