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 Rv1060/-:

update plot	correlation	link to info on gene
Rv0557/mgtA	(cc=0.4357)	info on Rv0557/mgtA
Rv2976c/ung	(cc=0.4334)	info on Rv2976c/ung
Rv0746/PE_PGRS9	(cc=0.4057)	info on Rv0746/PE_PGRS9
Rv1354c/-	(cc=0.4036)	info on Rv1354c/-
Rv2780/ald	(cc=0.3995)	info on Rv2780/ald
Rv2840c/-	(cc=0.3934)	info on Rv2840c/-
Rv3069/-	(cc=0.393)	info on Rv3069/-
Rv1506c/-	(cc=0.3714)	info on Rv1506c/-
Rv2581c/-	(cc=0.3639)	info on Rv2581c/-
Rv2041c/-	(cc=0.3618)	info on Rv2041c/-

Correlation of Rv1060/- with Rv2581c/-

Normalized LFCs for Rv1060/-:
(description and provenance of datasets)

	Rv1060/-	Rv2581c/-
Fe_supp_jason_reseq	-1.088	1.796
low_pH_jason_reseq	3.369	1.282
NO_jason_reseq	1.615	0.0
B6_jason_reseq	0.798	0.153
MHCII_jason_reseq	2.002	0.0
Isoniazid02	-0.34	0.0
Rifampicin4	0.374	0.0
Ethambutol3	-0.32	0.0
Meropenem3	-0.883	0.0
Vancomycin16	0.0	0.0
Rv2680_day32	-1.108	0.0
H37Rv_KO_MarP	1.476	-0.195
hypoxia_3wks	-0.359	-1.511
hypoxia_6wks	-0.161	-0.24
glycerol	0.0	0.0
cholesterol	0.17	0.0
AJ	1.059	0.0
Bibs02	0.408	0.0
Bibs02c	1.972	0.0
BL6	-0.114	0.0
BL6a	0.936	0.696
BXD01	1.132	0.0
BXD010	0.635	0.0
BXD011	0.0	0.0
BXD03	-0.123	0.0
BXD04	1.159	0.236
BXD05	-0.942	0.256
BXD06	0.426	0.0
BXD07	0.517	0.0
BXD08	0.955	0.133
BXD09	0.212	0.386
CAST	0.0	0.0
CCcont	-0.4	1.43
DS01	0.171	0.0
DS02	0.529	0.0
DS04	0.689	0.0
DS0c	-0.878	0.0
GP01	1.714	0.0
GP02	-0.562	0.0
GP0c	1.158	0.0
NOD	1.113	0.0
NZO	-0.566	0.0
PWK	-0.944	0.0
H37Rv_KO_CtpC	-0.105	0.0
H37Rv_KO_CtpD	-0.918	0.537
H37Rv_KO_Rv1272	-0.333	0.0
H37Rv_KO_SugABC	-1.716	0.099
H37Rv_KO_MbtN	0.281	0.0
Trans05	-0.764	0.0
macrophage_unactivated	3.248	0.436
IL1	0.086	0.0
Rapamycin	-0.092	0.0
Tcell	3.161	0.45
GMCSF	-0.24	0.364
IFNab	-0.777	0.417
IFNg	-0.16	0.0
IFNg_GMCSF1	1.929	0.0
Rv1432_day32	0.0	0.0
Rv1565c_day32	-3.244	-0.218
secA2_input	-2.918	0.157
delta_Rv3594	-0.159	-1.649
delta_Rv3717	-1.651	-2.25
delta_Rv3811	-1.056	-1.725
delta_Rv0954	-1.398	-2.31
PonA1	0.945	1.526
EccD1_KO	1.957	2.654
EspI_KO	1.397	0.485
PE35_KO	0.583	0.496
PPE68_KO	1.84	1.677
glycerol2	-0.202	-1.401
lignocerate	-1.333	-1.218
oleate	0.079	-1.418
phosphatidylcholine	-0.167	-1.401
acetate	-1.514	-0.856
glucAc	-2.744	-0.532
Rv0950ko	-0.591	1.462
Rv1096ko	-0.383	2.045
Rv3684ko	1.893	1.916
delta_otsA_trehalose	1.069	0.0