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 Rv0808/purF

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

	Rv3902c/-	Rv0808/purF
Fe_supp_jason_reseq	0.415	0.38
low_pH_jason_reseq	0.0	1.188
NO_jason_reseq	0.0	0.0
B6_jason_reseq	0.0	-0.153
MHCII_jason_reseq	0.0	0.0
Isoniazid02	0.201	-0.263
Rifampicin4	0.0	-0.49
Ethambutol3	0.0	-0.34
Meropenem3	0.0	-0.335
Vancomycin16	0.0	-0.231
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.195	0.546
hypoxia_3wks	0.0	-0.427
hypoxia_6wks	0.0	0.209
glycerol	0.0	0.471
cholesterol	0.0	-0.132
AJ	0.0	0.845
Bibs02	0.0	-0.348
Bibs02c	0.0	-0.399
BL6	0.0	0.0
BL6a	0.0	0.462
BXD01	0.0	-0.119
BXD010	0.0	-0.244
BXD011	0.0	0.745
BXD03	0.0	0.113
BXD04	0.0	-0.113
BXD05	0.0	0.0
BXD06	0.0	0.566
BXD07	0.0	0.323
BXD08	0.0	0.564
BXD09	0.0	0.89
CAST	0.0	-0.439
CCcont	0.0	0.124
DS01	0.0	0.0
DS02	0.0	0.181
DS04	0.0	-0.177
DS0c	0.0	0.0
GP01	0.0	0.0
GP02	0.0	0.737
GP0c	0.0	0.303
NOD	0.0	-0.428
NZO	0.0	0.0
PWK	0.0	-0.374
H37Rv_KO_CtpC	0.0	0.261
H37Rv_KO_CtpD	0.0	-0.116
H37Rv_KO_Rv1272	0.783	0.117
H37Rv_KO_SugABC	0.0	-0.09
H37Rv_KO_MbtN	0.0	-0.196
Trans05	0.459	0.827
macrophage_unactivated	0.0	0.571
IL1	0.0	0.276
Rapamycin	0.0	0.807
Tcell	0.0	0.303
GMCSF	0.0	0.478
IFNab	0.0	1.031
IFNg	0.0	0.484
IFNg_GMCSF1	0.0	0.569
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.0	0.302
delta_Rv3594	0.402	0.742
delta_Rv3717	0.174	0.477
delta_Rv3811	0.0	1.008
delta_Rv0954	0.0	2.762
PonA1	0.0	0.783
EccD1_KO	0.0	0.865
EspI_KO	0.359	1.934
PE35_KO	0.368	1.415
PPE68_KO	0.0	0.579
glycerol2	0.0	0.0
lignocerate	0.0	0.0
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.229
glucAc	0.143	0.143
Rv0950ko	-1.462	-1.668
Rv1096ko	-1.05	-0.639
Rv3684ko	-1.14	-2.135
delta_otsA_trehalose	0.0	-1.235