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 Rv2690c/-:

update plot	correlation	link to info on gene
Rv3200c/-	(cc=0.5603)	info on Rv3200c/-
Rv2983/-	(cc=0.5018)	info on Rv2983/-
Rv3490/otsA	(cc=0.4802)	info on Rv3490/otsA
Rv2397c/cysA1	(cc=0.4793)	info on Rv2397c/cysA1
Rv1324/-	(cc=0.478)	info on Rv1324/-
Rv2256c/-	(cc=0.4574)	info on Rv2256c/-
Rv2837c/-	(cc=0.4454)	info on Rv2837c/-
Rv2785c/rpsO	(cc=0.4444)	info on Rv2785c/rpsO
Rv1340/rphA	(cc=0.4438)	info on Rv1340/rphA
Rv0541c/-	(cc=0.4309)	info on Rv0541c/-

Correlation of Rv2690c/- with Rv1340/rphA

Normalized LFCs for Rv2690c/-:
(description and provenance of datasets)

	Rv2690c/-	Rv1340/rphA
Fe_supp_jason_reseq	0.0	1.209
low_pH_jason_reseq	0.0	0.231
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.135
Isoniazid02	0.437	1.053
Rifampicin4	1.681	-1.939
Ethambutol3	0.251	0.146
Meropenem3	0.562	0.0
Vancomycin16	2.502	1.382
Rv2680_day32	-0.249	0.0
H37Rv_KO_MarP	-1.317	-2.822
hypoxia_3wks	0.0	-0.427
hypoxia_6wks	0.0	1.748
glycerol	0.0	2.017
cholesterol	1.663	0.0
AJ	0.0	0.0
Bibs02	0.0	0.0
Bibs02c	0.0	0.0
BL6	0.0	0.0
BL6a	0.0	0.198
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.626
BXD03	0.0	0.664
BXD04	0.0	0.34
BXD05	0.0	0.135
BXD06	0.0	0.254
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.386
CAST	0.0	0.0
CCcont	0.285	1.955
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.533	0.533
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.0
GP0c	0.0	0.0
NOD	0.0	0.0
NZO	0.0	0.0
PWK	0.0	0.0
H37Rv_KO_CtpC	0.162	0.0
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	1.783	0.768
H37Rv_KO_MbtN	0.283	0.0
Trans05	0.0	0.0
macrophage_unactivated	0.0	0.739
IL1	0.0	2.136
Rapamycin	0.0	1.525
Tcell	0.0	0.0
GMCSF	0.0	0.422
IFNab	0.0	-0.263
IFNg	0.0	0.994
IFNg_GMCSF1	0.0	0.958
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	-0.916	-1.13
delta_Rv3594	1.086	1.579
delta_Rv3717	0.563	2.287
delta_Rv3811	1.282	0.934
delta_Rv0954	0.311	-1.47
PonA1	0.145	-0.583
EccD1_KO	-0.678	-3.924
EspI_KO	-0.918	-2.852
PE35_KO	0.767	0.128
PPE68_KO	0.298	-0.454
glycerol2	0.0	-1.188
lignocerate	0.0	-1.033
oleate	0.0	-1.202
phosphatidylcholine	0.0	-1.188
acetate	0.0	0.973
glucAc	0.0	-0.375
Rv0950ko	-1.251	-3.217
Rv1096ko	0.262	-2.289
Rv3684ko	-0.982	-2.862
delta_otsA_trehalose	-0.014	0.232