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 Rv3902c/-:

update plot	correlation	link to info on gene
Rv3588c/canB	(cc=0.8239)	info on Rv3588c/canB
Rv3410c/guaB3	(cc=0.6916)	info on Rv3410c/guaB3
Rv3035/-	(cc=0.6788)	info on Rv3035/-
Rv2256c/-	(cc=0.6625)	info on Rv2256c/-
Rv2837c/-	(cc=0.5789)	info on Rv2837c/-
Rv1571/-	(cc=0.5757)	info on Rv1571/-
Rv2399c/cysT	(cc=0.5531)	info on Rv2399c/cysT
Rv3490/otsA	(cc=0.5462)	info on Rv3490/otsA
Rv2202c/adoK	(cc=0.5444)	info on Rv2202c/adoK
Rv0808/purF	(cc=0.5295)	info on Rv0808/purF

Correlation of Rv3902c/- with Rv2399c/cysT

Normalized LFCs for Rv3902c/-:
(description and provenance of datasets)

	Rv3902c/-	Rv2399c/cysT
Fe_supp_jason_reseq	0.415	0.923
low_pH_jason_reseq	0.0	0.0
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	0.0
MHCII_jason_reseq	0.0	0.0
Isoniazid02	0.201	-1.033
Rifampicin4	0.0	-1.584
Ethambutol3	0.0	-0.863
Meropenem3	0.0	-1.016
Vancomycin16	0.0	0.0
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.195	-0.825
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	0.0
glycerol	0.0	0.0
cholesterol	0.0	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	0.0
BXD01	0.0	0.0
BXD010	0.0	0.0
BXD011	0.0	0.0
BXD03	0.0	0.0
BXD04	0.0	0.0
BXD05	0.0	0.0
BXD06	0.0	0.0
BXD07	0.0	0.0
BXD08	0.0	0.0
BXD09	0.0	0.0
CAST	0.0	0.0
CCcont	0.0	0.41
DS01	0.0	0.0
DS02	0.0	0.0
DS04	0.0	0.0
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	0.0	0.0
H37Rv_KO_CtpD	0.0	0.0
H37Rv_KO_Rv1272	0.783	0.0
H37Rv_KO_SugABC	0.0	0.0
H37Rv_KO_MbtN	0.0	0.0
Trans05	0.459	0.0
macrophage_unactivated	0.0	0.0
IL1	0.0	0.0
Rapamycin	0.0	0.0
Tcell	0.0	0.0
GMCSF	0.0	0.0
IFNab	0.0	0.0
IFNg	0.0	0.0
IFNg_GMCSF1	0.0	0.0
Rv1432_day32	0.0	-0.18
Rv1565c_day32	0.0	0.0
secA2_input	0.0	-1.781
delta_Rv3594	0.402	0.0
delta_Rv3717	0.174	0.0
delta_Rv3811	0.0	0.0
delta_Rv0954	0.0	0.99
PonA1	0.0	0.675
EccD1_KO	0.0	-3.289
EspI_KO	0.359	-2.852
PE35_KO	0.368	4.361
PPE68_KO	0.0	1.584
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.143	0.0
Rv0950ko	-1.462	-2.572
Rv1096ko	-1.05	-4.065
Rv3684ko	-1.14	-3.108
delta_otsA_trehalose	0.0	0.096