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 Rv0455c/-:

update plot	correlation	link to info on gene
Rv3274c/fadE25	(cc=0.6419)	info on Rv3274c/fadE25
Rv1379/pyrR	(cc=0.6323)	info on Rv1379/pyrR
Rv3588c/canB	(cc=0.531)	info on Rv3588c/canB
Rv1078/pra	(cc=0.5176)	info on Rv1078/pra
Rv2195/qcrA	(cc=0.5081)	info on Rv2195/qcrA
Rv2928/tesA	(cc=0.4896)	info on Rv2928/tesA
Rv3902c/-	(cc=0.4888)	info on Rv3902c/-
Rv1458c/-	(cc=0.4814)	info on Rv1458c/-
Rv2524c/fas	(cc=0.474)	info on Rv2524c/fas
Rv2941/fadD28	(cc=0.4619)	info on Rv2941/fadD28

Correlation of Rv0455c/- with Rv1458c/-

Normalized LFCs for Rv0455c/-:
(description and provenance of datasets)

	Rv0455c/-	Rv1458c/-
Fe_supp_jason_reseq	3.939	1.209
low_pH_jason_reseq	0.211	0.811
NO_jason_reseq	-0.362	0.0
B6_jason_reseq	-0.153	0.0
MHCII_jason_reseq	-0.135	0.0
Isoniazid02	0.167	-0.383
Rifampicin4	-0.341	-0.712
Ethambutol3	0.27	0.612
Meropenem3	0.0	1.402
Vancomycin16	-0.334	0.0
Rv2680_day32	0.0	-0.131
H37Rv_KO_MarP	4.219	1.946
hypoxia_3wks	-1.511	0.0
hypoxia_6wks	-0.791	0.0
glycerol	0.0	0.554
cholesterol	0.0	0.398
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	0.54	0.127
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	2.716	0.149
DS01	0.0	0.0
DS02	0.0	0.217
DS04	0.37	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	0.446
H37Rv_KO_CtpD	0.445	0.85
H37Rv_KO_Rv1272	0.0	0.0
H37Rv_KO_SugABC	0.189	0.099
H37Rv_KO_MbtN	0.103	0.0
Trans05	0.131	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	0.0
Rv1565c_day32	0.0	0.0
secA2_input	1.273	2.602
delta_Rv3594	-1.597	-1.014
delta_Rv3717	-0.143	-0.688
delta_Rv3811	-1.423	-0.656
delta_Rv0954	-2.762	0.788
PonA1	-3.142	-0.286
EccD1_KO	-0.595	-1.273
EspI_KO	-1.435	0.234
PE35_KO	1.085	-0.254
PPE68_KO	0.0	-0.278
glycerol2	0.0	-0.68
lignocerate	0.0	-0.591
oleate	0.0	-0.688
phosphatidylcholine	0.0	-0.679
acetate	0.0	-0.806
glucAc	0.0	0.103
Rv0950ko	-3.169	-0.582
Rv1096ko	-2.868	-0.582
Rv3684ko	-4.169	-0.632
delta_otsA_trehalose	0.0	-1.007