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 Rv3007c/-

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

	Rv1454c/qor	Rv3007c/-
Fe_supp_jason_reseq	-0.649	-0.69
low_pH_jason_reseq	0.192	0.136
NO_jason_reseq	-0.032	-0.168
B6_jason_reseq	-0.152	0.09
MHCII_jason_reseq	-0.505	0.131
Isoniazid02	0.169	-0.194
Rifampicin4	0.0	-0.114
Ethambutol3	0.109	0.203
Meropenem3	0.345	0.2
Vancomycin16	-0.088	0.199
Rv2680_day32	0.58	0.922
H37Rv_KO_MarP	-0.093	0.691
hypoxia_3wks	-0.706	0.267
hypoxia_6wks	0.244	0.113
glycerol	0.246	0.778
cholesterol	-0.278	0.484
AJ	0.392	0.619
Bibs02	0.144	0.699
Bibs02c	0.514	0.153
BL6	0.085	-0.19
BL6a	0.36	0.034
BXD01	-0.084	-0.018
BXD010	0.096	-0.478
BXD011	0.137	0.532
BXD03	0.14	-0.408
BXD04	-0.1	0.008
BXD05	0.668	0.705
BXD06	0.194	0.19
BXD07	0.211	-0.019
BXD08	0.597	0.208
BXD09	0.005	0.152
CAST	0.053	0.596
CCcont	-0.005	-0.048
DS01	0.221	-0.169
DS02	0.72	-0.091
DS04	0.877	0.35
DS0c	0.3	0.228
GP01	0.341	-0.031
GP02	0.787	0.254
GP0c	-0.219	0.087
NOD	1.038	0.939
NZO	0.344	0.853
PWK	0.351	0.811
H37Rv_KO_CtpC	0.414	1.414
H37Rv_KO_CtpD	0.517	0.125
H37Rv_KO_Rv1272	-0.271	0.225
H37Rv_KO_SugABC	0.435	0.73
H37Rv_KO_MbtN	0.639	-0.648
Trans05	0.533	-0.013
macrophage_unactivated	-0.423	0.044
IL1	0.148	0.436
Rapamycin	0.273	-0.117
Tcell	-0.401	0.381
GMCSF	0.768	0.251
IFNab	0.777	0.193
IFNg	-0.04	0.291
IFNg_GMCSF1	0.063	-0.016
Rv1432_day32	-1.319	0.424
Rv1565c_day32	-0.731	0.033
secA2_input	-0.213	-1.124
delta_Rv3594	-0.136	-0.021
delta_Rv3717	0.627	-0.082
delta_Rv3811	-0.016	0.062
delta_Rv0954	0.107	0.214
PonA1	0.127	0.772
EccD1_KO	0.592	0.424
EspI_KO	0.787	0.69
PE35_KO	0.05	0.111
PPE68_KO	-0.637	0.141
glycerol2	0.539	0.895
lignocerate	0.981	1.022
oleate	-0.135	0.499
phosphatidylcholine	0.734	0.868
acetate	0.299	0.115
glucAc	0.329	0.128
Rv0950ko	-0.362	-0.555
Rv1096ko	-0.718	-0.745
Rv3684ko	-0.138	-0.927
delta_otsA_trehalose	-0.183	0.123