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 Rv0042c/-:

update plot	correlation	link to info on gene
Rv2147c/-	(cc=0.5768)	info on Rv2147c/-
Rv2219/-	(cc=0.5704)	info on Rv2219/-
Rv1005c/pabB	(cc=0.5581)	info on Rv1005c/pabB
Rv0945/-	(cc=0.555)	info on Rv0945/-
Rv0698/-	(cc=0.5519)	info on Rv0698/-
Rv1987/-	(cc=0.547)	info on Rv1987/-
Rv0312/-	(cc=0.5331)	info on Rv0312/-
Rv2607/pdxH	(cc=0.5271)	info on Rv2607/pdxH
Rv1062/-	(cc=0.5185)	info on Rv1062/-
Rv0109/PE_PGRS1	(cc=0.5114)	info on Rv0109/PE_PGRS1

Correlation of Rv0042c/- with Rv1005c/pabB

Normalized LFCs for Rv0042c/-:
(description and provenance of datasets)

	Rv0042c/-	Rv1005c/pabB
Fe_supp_jason_reseq	-0.429	-0.598
low_pH_jason_reseq	2.832	1.626
NO_jason_reseq	-1.168	-0.226
B6_jason_reseq	-1.443	-0.031
MHCII_jason_reseq	0.527	-0.406
Isoniazid02	0.24	-0.191
Rifampicin4	-0.915	-0.547
Ethambutol3	1.484	0.146
Meropenem3	-0.53	-0.472
Vancomycin16	-1.47	0.0
Rv2680_day32	0.249	1.615
H37Rv_KO_MarP	-1.381	-1.111
hypoxia_3wks	-2.703	-0.698
hypoxia_6wks	-2.955	-1.539
glycerol	0.231	-0.753
cholesterol	-0.36	0.614
AJ	-0.761	0.156
Bibs02	-0.319	-0.427
Bibs02c	-0.317	-1.241
BL6	2.042	1.675
BL6a	0.644	0.067
BXD01	1.487	1.094
BXD010	1.227	0.044
BXD011	-0.026	1.165
BXD03	2.173	0.297
BXD04	1.113	0.634
BXD05	0.154	0.602
BXD06	0.511	0.502
BXD07	0.605	0.796
BXD08	0.793	0.987
BXD09	1.114	0.994
CAST	0.179	0.439
CCcont	2.186	1.43
DS01	-0.25	-0.084
DS02	-0.54	0.285
DS04	-1.33	-0.141
DS0c	1.141	0.217
GP01	1.385	0.973
GP02	0.271	-0.03
GP0c	2.192	-0.551
NOD	-0.446	-0.727
NZO	-0.04	0.262
PWK	0.52	1.584
H37Rv_KO_CtpC	0.95	1.39
H37Rv_KO_CtpD	2.27	0.896
H37Rv_KO_Rv1272	1.846	0.269
H37Rv_KO_SugABC	-1.157	0.8
H37Rv_KO_MbtN	1.155	1.03
Trans05	1.371	0.725
macrophage_unactivated	0.669	-0.571
IL1	0.05	-0.35
Rapamycin	-0.638	-0.267
Tcell	-0.176	0.355
GMCSF	-0.549	-0.077
IFNab	-0.275	-0.088
IFNg	-1.539	0.147
IFNg_GMCSF1	-0.984	-1.581
Rv1432_day32	4.1	1.274
Rv1565c_day32	-0.415	-0.847
secA2_input	0.484	0.82
delta_Rv3594	2.183	0.288
delta_Rv3717	2.034	0.237
delta_Rv3811	1.828	0.605
delta_Rv0954	0.766	-0.23
PonA1	0.856	0.688
EccD1_KO	-0.895	0.865
EspI_KO	-2.13	-0.696
PE35_KO	-0.356	-0.093
PPE68_KO	0.403	0.202
glycerol2	3.869	0.567
lignocerate	3.653	1.218
oleate	-1.202	-0.43
phosphatidylcholine	3.064	0.483
acetate	3.807	0.574
glucAc	3.201	0.84
Rv0950ko	-0.476	-0.926
Rv1096ko	-2.063	0.356
Rv3684ko	-0.252	0.992
delta_otsA_trehalose	0.739	0.352