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 Rv1571/-

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

	Rv3902c/-	Rv1571/-
Fe_supp_jason_reseq	0.415	0.923
low_pH_jason_reseq	0.0	-1.419
NO_jason_reseq	0.0	-2.226
B6_jason_reseq	0.0	-0.403
MHCII_jason_reseq	0.0	-0.829
Isoniazid02	0.201	-0.063
Rifampicin4	0.0	1.346
Ethambutol3	0.0	0.53
Meropenem3	0.0	0.981
Vancomycin16	0.0	0.525
Rv2680_day32	0.0	0.0
H37Rv_KO_MarP	-0.195	-1.772
hypoxia_3wks	0.0	0.0
hypoxia_6wks	0.0	-0.288
glycerol	0.0	-0.202
cholesterol	0.0	0.659
AJ	0.0	-0.232
Bibs02	0.0	-0.183
Bibs02c	0.0	-0.209
BL6	0.0	-0.125
BL6a	0.0	-0.198
BXD01	0.0	-0.13
BXD010	0.0	-0.128
BXD011	0.0	-0.127
BXD03	0.0	-0.135
BXD04	0.0	-0.124
BXD05	0.0	-0.135
BXD06	0.0	-0.133
BXD07	0.0	0.0
BXD08	0.0	-0.133
BXD09	0.0	-0.14
CAST	0.0	0.581
CCcont	0.0	0.376
DS01	0.0	1.075
DS02	0.0	-0.217
DS04	0.0	1.495
DS0c	0.0	-0.217
GP01	0.0	-0.099
GP02	0.0	-0.083
GP0c	0.0	-0.13
NOD	0.0	-0.225
NZO	0.0	-0.199
PWK	0.0	0.0
H37Rv_KO_CtpC	0.0	-0.162
H37Rv_KO_CtpD	0.0	0.116
H37Rv_KO_Rv1272	0.783	3.081
H37Rv_KO_SugABC	0.0	0.09
H37Rv_KO_MbtN	0.0	-0.103
Trans05	0.459	1.796
macrophage_unactivated	0.0	-0.83
IL1	0.0	0.0
Rapamycin	0.0	3.591
Tcell	0.0	1.352
GMCSF	0.0	-0.694
IFNab	0.0	0.0
IFNg	0.0	-0.703
IFNg_GMCSF1	0.0	-0.826
Rv1432_day32	0.0	0.0
Rv1565c_day32	0.0	0.0
secA2_input	0.0	-1.398
delta_Rv3594	0.402	2.091
delta_Rv3717	0.174	1.72
delta_Rv3811	0.0	-0.116
delta_Rv0954	0.0	1.84
PonA1	0.0	0.0
EccD1_KO	0.0	2.0
EspI_KO	0.359	3.73
PE35_KO	0.368	2.497
PPE68_KO	0.0	2.086
glycerol2	0.0	0.0
lignocerate	0.0	0.462
oleate	0.0	0.0
phosphatidylcholine	0.0	0.0
acetate	0.0	0.0
glucAc	0.143	0.0
Rv0950ko	-1.462	-3.395
Rv1096ko	-1.05	-0.38
Rv3684ko	-1.14	-1.359
delta_otsA_trehalose	0.0	0.0