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 Rv2276/cyp121:

update plot	correlation	link to info on gene
Rv3112/moaD1	(cc=0.608)	info on Rv3112/moaD1
Rv2253/-	(cc=0.606)	info on Rv2253/-
Rv2119/-	(cc=0.5777)	info on Rv2119/-
Rv2816c/-	(cc=0.5751)	info on Rv2816c/-
Rv0698/-	(cc=0.5722)	info on Rv0698/-
Rv0596c/vapB4	(cc=0.5715)	info on Rv0596c/vapB4
Rv2267c/-	(cc=0.5628)	info on Rv2267c/-
Rv2562/-	(cc=0.5556)	info on Rv2562/-
Rv0945/-	(cc=0.5409)	info on Rv0945/-
Rv0055/rpsR1	(cc=0.5396)	info on Rv0055/rpsR1

Correlation of Rv2276/cyp121 with Rv0698/-

Normalized LFCs for Rv2276/cyp121:
(description and provenance of datasets)

	Rv2276/cyp121	Rv0698/-
Fe_supp_jason_reseq	0.439	-2.327
low_pH_jason_reseq	-0.052	0.706
NO_jason_reseq	-0.806	-0.155
B6_jason_reseq	-0.341	-2.577
MHCII_jason_reseq	0.367	-1.035
Isoniazid02	-0.042	-0.113
Rifampicin4	-0.241	0.39
Ethambutol3	-0.306	0.336
Meropenem3	-0.474	0.089
Vancomycin16	0.223	0.0
Rv2680_day32	-0.449	1.157
H37Rv_KO_MarP	-0.26	0.313
hypoxia_3wks	-0.403	-0.921
hypoxia_6wks	-1.247	-1.059
glycerol	0.237	0.192
cholesterol	0.233	0.203
AJ	1.133	-0.118
Bibs02	0.55	-0.775
Bibs02c	-0.277	-1.622
BL6	1.637	1.536
BL6a	0.936	-0.207
BXD01	1.007	0.911
BXD010	0.564	0.432
BXD011	0.581	0.233
BXD03	1.281	-0.069
BXD04	1.013	2.14
BXD05	0.888	0.835
BXD06	1.393	0.451
BXD07	0.491	1.134
BXD08	1.581	0.541
BXD09	1.36	-0.071
CAST	0.42	-0.37
CCcont	1.89	2.126
DS01	0.479	0.527
DS02	0.158	0.654
DS04	0.472	0.354
DS0c	0.693	0.809
GP01	0.678	0.715
GP02	-0.384	-0.292
GP0c	0.094	1.916
NOD	1.988	1.57
NZO	0.097	-0.321
PWK	0.142	0.274
H37Rv_KO_CtpC	1.918	-0.261
H37Rv_KO_CtpD	0.516	0.949
H37Rv_KO_Rv1272	0.931	0.315
H37Rv_KO_SugABC	1.332	-0.669
H37Rv_KO_MbtN	-0.108	0.098
Trans05	1.265	1.877
macrophage_unactivated	0.859	0.133
IL1	-0.617	-0.128
Rapamycin	-0.338	-0.132
Tcell	0.541	0.521
GMCSF	-0.444	-1.172
IFNab	-0.109	0.248
IFNg	0.045	-0.355
IFNg_GMCSF1	-0.226	-0.135
Rv1432_day32	-0.143	0.0
Rv1565c_day32	-0.599	0.45
secA2_input	-1.486	-2.719
delta_Rv3594	-0.623	-0.922
delta_Rv3717	-1.106	-2.231
delta_Rv3811	0.44	-0.107
delta_Rv0954	-0.441	-0.142
PonA1	0.684	-1.196
EccD1_KO	0.21	-2.144
EspI_KO	2.193	-0.827
PE35_KO	2.129	-0.128
PPE68_KO	1.872	-0.141
glycerol2	1.864	2.221
lignocerate	2.12	2.498
oleate	0.169	-0.688
phosphatidylcholine	1.84	2.359
acetate	2.369	3.41
glucAc	1.957	2.902
Rv0950ko	0.06	-0.256
Rv1096ko	0.06	-0.528
Rv3684ko	-0.416	-0.888
delta_otsA_trehalose	1.275	1.38