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 Rv2126c/PE_PGRS37:

update plot	correlation	link to info on gene
Rv2972c/-	(cc=0.5261)	info on Rv2972c/-
Rv2970A/-	(cc=0.4649)	info on Rv2970A/-
Rv2779c/-	(cc=0.4421)	info on Rv2779c/-
Rv3430c/-	(cc=0.4414)	info on Rv3430c/-
Rv1879/-	(cc=0.4323)	info on Rv1879/-
Rv1579c/-	(cc=0.4048)	info on Rv1579c/-
Rv3339c/icd1	(cc=0.3928)	info on Rv3339c/icd1
Rv0728c/serA2	(cc=0.3883)	info on Rv0728c/serA2
Rv3123/-	(cc=0.3877)	info on Rv3123/-
Rv1520/-	(cc=0.3711)	info on Rv1520/-

Correlation of Rv2126c/PE_PGRS37 with Rv0728c/serA2

Normalized LFCs for Rv2126c/PE_PGRS37:
(description and provenance of datasets)

	Rv2126c/PE_PGRS37	Rv0728c/serA2
Fe_supp_jason_reseq	0.257	0.584
low_pH_jason_reseq	-0.065	-0.744
NO_jason_reseq	-0.722	-0.494
B6_jason_reseq	0.766	-0.184
MHCII_jason_reseq	0.501	-0.151
Isoniazid02	0.781	0.068
Rifampicin4	0.853	0.349
Ethambutol3	3.067	0.0
Meropenem3	1.497	1.656
Vancomycin16	0.799	0.822
Rv2680_day32	1.032	-0.252
H37Rv_KO_MarP	-0.168	0.246
hypoxia_3wks	-0.494	0.387
hypoxia_6wks	-0.829	0.679
glycerol	-0.186	-0.471
cholesterol	-0.961	-0.371
AJ	0.615	0.282
Bibs02	0.64	-0.832
Bibs02c	0.997	0.42
BL6	-0.048	0.407
BL6a	0.913	0.336
BXD01	1.015	0.242
BXD010	-0.391	0.989
BXD011	1.425	1.865
BXD03	-0.482	0.127
BXD04	1.608	0.472
BXD05	0.507	0.818
BXD06	0.699	0.666
BXD07	0.693	0.462
BXD08	0.98	0.752
BXD09	0.359	0.624
CAST	-1.268	0.342
CCcont	-0.48	-0.076
DS01	-0.457	-0.26
DS02	-0.083	-0.969
DS04	0.814	-0.707
DS0c	-0.42	-0.625
GP01	-1.837	-0.703
GP02	-0.065	-1.195
GP0c	-0.636	-0.776
NOD	-0.27	-0.456
NZO	0.282	0.538
PWK	-0.35	-0.151
H37Rv_KO_CtpC	-0.195	0.896
H37Rv_KO_CtpD	-0.84	-1.949
H37Rv_KO_Rv1272	-0.776	0.626
H37Rv_KO_SugABC	0.966	0.361
H37Rv_KO_MbtN	1.055	0.712
Trans05	-0.836	0.327
macrophage_unactivated	-0.41	0.0
IL1	1.071	0.056
Rapamycin	0.896	0.678
Tcell	0.606	0.244
GMCSF	0.824	0.116
IFNab	0.396	0.0
IFNg	0.468	0.361
IFNg_GMCSF1	0.688	0.71
Rv1432_day32	0.284	1.709
Rv1565c_day32	-0.93	0.392
secA2_input	0.792	0.044
delta_Rv3594	-0.87	-1.418
delta_Rv3717	-0.614	-0.603
delta_Rv3811	-0.226	-0.931
delta_Rv0954	-1.244	-0.848
PonA1	-1.028	0.07
EccD1_KO	-0.497	0.026
EspI_KO	0.2	0.242
PE35_KO	-0.213	-0.166
PPE68_KO	-0.077	-0.624
glycerol2	0.349	0.242
lignocerate	0.026	0.407
oleate	1.404	0.047
phosphatidylcholine	0.514	0.113
acetate	-0.256	-0.113
glucAc	-0.394	0.116
Rv0950ko	-0.66	0.078
Rv1096ko	-0.917	-0.133
Rv3684ko	-1.294	-0.413
delta_otsA_trehalose	0.657	-0.68