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 Rv0602c/tcrA

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

	Rv1454c/qor	Rv0602c/tcrA
Fe_supp_jason_reseq	-0.649	-1.909
low_pH_jason_reseq	0.192	-0.07
NO_jason_reseq	-0.032	-0.58
B6_jason_reseq	-0.152	-0.81
MHCII_jason_reseq	-0.505	0.296
Isoniazid02	0.169	2.155
Rifampicin4	0.0	0.818
Ethambutol3	0.109	1.688
Meropenem3	0.345	0.879
Vancomycin16	-0.088	0.422
Rv2680_day32	0.58	0.835
H37Rv_KO_MarP	-0.093	0.562
hypoxia_3wks	-0.706	-0.231
hypoxia_6wks	0.244	-0.163
glycerol	0.246	0.124
cholesterol	-0.278	-0.809
AJ	0.392	0.506
Bibs02	0.144	-0.556
Bibs02c	0.514	0.044
BL6	0.085	-0.472
BL6a	0.36	0.804
BXD01	-0.084	0.041
BXD010	0.096	0.224
BXD011	0.137	-0.758
BXD03	0.14	0.174
BXD04	-0.1	-0.26
BXD05	0.668	-0.181
BXD06	0.194	-0.425
BXD07	0.211	-0.587
BXD08	0.597	0.244
BXD09	0.005	-0.173
CAST	0.053	-0.15
CCcont	-0.005	0.413
DS01	0.221	-0.128
DS02	0.72	0.176
DS04	0.877	0.717
DS0c	0.3	0.583
GP01	0.341	0.984
GP02	0.787	1.533
GP0c	-0.219	-0.014
NOD	1.038	-1.137
NZO	0.344	-1.043
PWK	0.351	-0.652
H37Rv_KO_CtpC	0.414	0.067
H37Rv_KO_CtpD	0.517	-0.662
H37Rv_KO_Rv1272	-0.271	-1.13
H37Rv_KO_SugABC	0.435	0.758
H37Rv_KO_MbtN	0.639	0.433
Trans05	0.533	0.054
macrophage_unactivated	-0.423	0.114
IL1	0.148	0.107
Rapamycin	0.273	-0.921
Tcell	-0.401	-0.241
GMCSF	0.768	-0.195
IFNab	0.777	-0.774
IFNg	-0.04	-1.446
IFNg_GMCSF1	0.063	-0.54
Rv1432_day32	-1.319	-1.136
Rv1565c_day32	-0.731	-0.498
secA2_input	-0.213	0.842
delta_Rv3594	-0.136	0.947
delta_Rv3717	0.627	-0.133
delta_Rv3811	-0.016	0.358
delta_Rv0954	0.107	1.072
PonA1	0.127	0.388
EccD1_KO	0.592	-0.036
EspI_KO	0.787	-0.724
PE35_KO	0.05	-0.589
PPE68_KO	-0.637	-1.03
glycerol2	0.539	1.655
lignocerate	0.981	2.549
oleate	-0.135	-1.121
phosphatidylcholine	0.734	1.769
acetate	0.299	2.1
glucAc	0.329	2.569
Rv0950ko	-0.362	-1.122
Rv1096ko	-0.718	0.555
Rv3684ko	-0.138	-0.547
delta_otsA_trehalose	-0.183	0.014