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 Rv1554/frdC:

update plot	correlation	link to info on gene
Rv2266/cyp124	(cc=0.5296)	info on Rv2266/cyp124
Rv2780/ald	(cc=0.516)	info on Rv2780/ald
Rv2270/lppN	(cc=0.5063)	info on Rv2270/lppN
Rv3189/-	(cc=0.4999)	info on Rv3189/-
Rv2169c/-	(cc=0.497)	info on Rv2169c/-
Rv1101c/-	(cc=0.4946)	info on Rv1101c/-
Rv2290/lppO	(cc=0.4935)	info on Rv2290/lppO
Rv2083/-	(cc=0.4867)	info on Rv2083/-
Rv1399c/nlhH	(cc=0.4826)	info on Rv1399c/nlhH
Rv2847c/cysG	(cc=0.4808)	info on Rv2847c/cysG

Correlation of Rv1554/frdC with Rv3189/-

Normalized LFCs for Rv1554/frdC:
(description and provenance of datasets)

	Rv1554/frdC	Rv3189/-
Fe_supp_jason_reseq	-0.125	0.772
low_pH_jason_reseq	0.497	-0.999
NO_jason_reseq	-0.333	-0.478
B6_jason_reseq	1.17	0.781
MHCII_jason_reseq	0.359	0.581
Isoniazid02	0.054	-0.464
Rifampicin4	0.328	0.054
Ethambutol3	0.139	-0.096
Meropenem3	-0.158	0.024
Vancomycin16	-0.244	-0.027
Rv2680_day32	0.035	-0.389
H37Rv_KO_MarP	0.377	0.047
hypoxia_3wks	0.977	0.044
hypoxia_6wks	1.472	-0.023
glycerol	0.187	-0.503
cholesterol	0.847	-0.052
AJ	-0.071	0.227
Bibs02	0.522	0.468
Bibs02c	0.5	0.067
BL6	-0.352	0.155
BL6a	0.643	0.056
BXD01	0.13	-0.562
BXD010	0.88	0.212
BXD011	0.297	-0.076
BXD03	-0.195	-0.958
BXD04	0.212	0.14
BXD05	0.648	0.084
BXD06	0.271	0.279
BXD07	0.442	0.176
BXD08	1.1	-0.505
BXD09	0.546	-0.027
CAST	0.0	0.606
CCcont	-0.376	-0.084
DS01	0.977	0.406
DS02	0.682	1.09
DS04	0.308	0.173
DS0c	0.908	0.33
GP01	0.888	-0.436
GP02	0.49	0.244
GP0c	-0.328	-1.256
NOD	0.099	0.511
NZO	0.733	0.184
PWK	0.571	0.05
H37Rv_KO_CtpC	0.173	-0.125
H37Rv_KO_CtpD	1.074	0.511
H37Rv_KO_Rv1272	0.957	-0.028
H37Rv_KO_SugABC	0.243	-2.002
H37Rv_KO_MbtN	0.13	-0.939
Trans05	1.146	0.477
macrophage_unactivated	0.758	0.013
IL1	0.534	0.679
Rapamycin	0.552	0.657
Tcell	0.274	-0.632
GMCSF	0.246	0.314
IFNab	0.378	0.583
IFNg	0.5	0.345
IFNg_GMCSF1	0.729	0.663
Rv1432_day32	0.789	0.733
Rv1565c_day32	0.809	0.256
secA2_input	-1.088	0.111
delta_Rv3594	0.837	0.941
delta_Rv3717	0.59	0.159
delta_Rv3811	-0.042	0.358
delta_Rv0954	0.372	0.388
PonA1	0.182	1.267
EccD1_KO	1.95	1.592
EspI_KO	0.625	1.494
PE35_KO	1.301	1.205
PPE68_KO	0.966	1.142
glycerol2	-0.343	-0.914
lignocerate	-0.446	-0.609
oleate	-0.121	-0.882
phosphatidylcholine	-0.381	-0.902
acetate	-0.56	-0.763
glucAc	-0.739	-0.317
Rv0950ko	0.256	-0.018
Rv1096ko	-0.799	-0.217
Rv3684ko	-0.982	-1.022
delta_otsA_trehalose	0.076	0.337