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 Rv1454c/qor:

update plot	correlation	link to info on gene
Rv2804c/-	(cc=0.4034)	info on Rv2804c/-
Rv0731c/-	(cc=0.3957)	info on Rv0731c/-
Rv0114/gmhB	(cc=0.3669)	info on Rv0114/gmhB
Rv3007c/-	(cc=0.3643)	info on Rv3007c/-
Rv2666/-	(cc=0.3505)	info on Rv2666/-
Rv1199c/-	(cc=0.3455)	info on Rv1199c/-
Rv0963c/-	(cc=0.3379)	info on Rv0963c/-
Rv0602c/tcrA	(cc=0.3351)	info on Rv0602c/tcrA
Rv2176/pknL	(cc=0.3317)	info on Rv2176/pknL
Rv0744c/-	(cc=0.3309)	info on Rv0744c/-

Correlation of Rv1454c/qor with Rv2666/-

Normalized LFCs for Rv1454c/qor:
(description and provenance of datasets)

	Rv1454c/qor	Rv2666/-
Fe_supp_jason_reseq	-0.649	-0.736
low_pH_jason_reseq	0.192	-0.172
NO_jason_reseq	-0.032	-0.134
B6_jason_reseq	-0.152	-0.504
MHCII_jason_reseq	-0.505	-0.307
Isoniazid02	0.169	-0.626
Rifampicin4	0.0	0.374
Ethambutol3	0.109	-0.403
Meropenem3	0.345	0.846
Vancomycin16	-0.088	-0.658
Rv2680_day32	0.58	0.419
H37Rv_KO_MarP	-0.093	0.03
hypoxia_3wks	-0.706	0.255
hypoxia_6wks	0.244	-0.666
glycerol	0.246	0.367
cholesterol	-0.278	-0.126
AJ	0.392	0.951
Bibs02	0.144	0.486
Bibs02c	0.514	1.985
BL6	0.085	0.662
BL6a	0.36	0.867
BXD01	-0.084	0.487
BXD010	0.096	0.372
BXD011	0.137	0.476
BXD03	0.14	0.61
BXD04	-0.1	0.489
BXD05	0.668	0.835
BXD06	0.194	0.621
BXD07	0.211	1.017
BXD08	0.597	0.0
BXD09	0.005	0.397
CAST	0.053	1.086
CCcont	-0.005	-0.08
DS01	0.221	0.512
DS02	0.72	1.336
DS04	0.877	1.301
DS0c	0.3	0.979
GP01	0.341	0.828
GP02	0.787	0.317
GP0c	-0.219	0.578
NOD	1.038	1.287
NZO	0.344	0.498
PWK	0.351	0.705
H37Rv_KO_CtpC	0.414	1.244
H37Rv_KO_CtpD	0.517	1.05
H37Rv_KO_Rv1272	-0.271	1.122
H37Rv_KO_SugABC	0.435	0.807
H37Rv_KO_MbtN	0.639	0.558
Trans05	0.533	1.401
macrophage_unactivated	-0.423	-0.17
IL1	0.148	0.937
Rapamycin	0.273	-0.132
Tcell	-0.401	-1.183
GMCSF	0.768	0.718
IFNab	0.777	0.46
IFNg	-0.04	-0.144
IFNg_GMCSF1	0.063	0.355
Rv1432_day32	-1.319	-0.279
Rv1565c_day32	-0.731	-0.079
secA2_input	-0.213	-0.344
delta_Rv3594	-0.136	-0.347
delta_Rv3717	0.627	-0.457
delta_Rv3811	-0.016	0.045
delta_Rv0954	0.107	0.052
PonA1	0.127	-0.859
EccD1_KO	0.592	-0.681
EspI_KO	0.787	-0.066
PE35_KO	0.05	0.44
PPE68_KO	-0.637	-0.035
glycerol2	0.539	-1.153
lignocerate	0.981	-0.774
oleate	-0.135	-1.104
phosphatidylcholine	0.734	-0.811
acetate	0.299	1.49
glucAc	0.329	0.446
Rv0950ko	-0.362	-0.033
Rv1096ko	-0.718	-0.139
Rv3684ko	-0.138	-0.593
delta_otsA_trehalose	-0.183	-0.722