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 Rv2266/cyp124

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

	Rv1554/frdC	Rv2266/cyp124
Fe_supp_jason_reseq	-0.125	0.152
low_pH_jason_reseq	0.497	0.398
NO_jason_reseq	-0.333	-0.685
B6_jason_reseq	1.17	0.624
MHCII_jason_reseq	0.359	-0.08
Isoniazid02	0.054	-0.191
Rifampicin4	0.328	-0.057
Ethambutol3	0.139	-0.305
Meropenem3	-0.158	0.449
Vancomycin16	-0.244	-0.17
Rv2680_day32	0.035	-0.363
H37Rv_KO_MarP	0.377	-0.164
hypoxia_3wks	0.977	0.622
hypoxia_6wks	1.472	0.664
glycerol	0.187	0.149
cholesterol	0.847	0.0
AJ	-0.071	-0.237
Bibs02	0.522	0.441
Bibs02c	0.5	0.953
BL6	-0.352	-0.044
BL6a	0.643	0.366
BXD01	0.13	0.044
BXD010	0.88	0.053
BXD011	0.297	-0.651
BXD03	-0.195	-0.16
BXD04	0.212	-0.689
BXD05	0.648	-0.373
BXD06	0.271	-0.106
BXD07	0.442	0.24
BXD08	1.1	0.198
BXD09	0.546	0.058
CAST	0.0	-0.439
CCcont	-0.376	-0.285
DS01	0.977	0.409
DS02	0.682	-0.397
DS04	0.308	-0.097
DS0c	0.908	0.464
GP01	0.888	0.405
GP02	0.49	0.368
GP0c	-0.328	-0.871
NOD	0.099	-0.355
NZO	0.733	0.014
PWK	0.571	-0.617
H37Rv_KO_CtpC	0.173	-0.867
H37Rv_KO_CtpD	1.074	0.263
H37Rv_KO_Rv1272	0.957	0.966
H37Rv_KO_SugABC	0.243	0.593
H37Rv_KO_MbtN	0.13	-0.277
Trans05	1.146	0.613
macrophage_unactivated	0.758	-0.363
IL1	0.534	-0.851
Rapamycin	0.552	-0.092
Tcell	0.274	-0.098
GMCSF	0.246	-0.599
IFNab	0.378	-0.907
IFNg	0.5	-0.607
IFNg_GMCSF1	0.729	-1.474
Rv1432_day32	0.789	0.471
Rv1565c_day32	0.809	0.392
secA2_input	-1.088	-1.01
delta_Rv3594	0.837	0.84
delta_Rv3717	0.59	0.584
delta_Rv3811	-0.042	0.802
delta_Rv0954	0.372	0.291
PonA1	0.182	-0.881
EccD1_KO	1.95	0.96
EspI_KO	0.625	0.653
PE35_KO	1.301	1.327
PPE68_KO	0.966	1.03
glycerol2	-0.343	-0.356
lignocerate	-0.446	-0.247
oleate	-0.121	0.081
phosphatidylcholine	-0.381	-0.394
acetate	-0.56	-0.256
glucAc	-0.739	-0.71
Rv0950ko	0.256	-0.63
Rv1096ko	-0.799	-0.401
Rv3684ko	-0.982	0.033
delta_otsA_trehalose	0.076	-1.33