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 Rv1350/fabG2:

update plot	correlation	link to info on gene
Rv1574/-	(cc=0.4414)	info on Rv1574/-
Rv2461c/clpP1	(cc=0.4394)	info on Rv2461c/clpP1
Rv3765c/tcrX	(cc=0.4306)	info on Rv3765c/tcrX
Rv2044c/-	(cc=0.4184)	info on Rv2044c/-
Rv2168c/-	(cc=0.4022)	info on Rv2168c/-
Rv2454c/-	(cc=0.3999)	info on Rv2454c/-
Rv1924c/-	(cc=0.395)	info on Rv1924c/-
Rv2267c/-	(cc=0.3906)	info on Rv2267c/-
Rv0698/-	(cc=0.3867)	info on Rv0698/-
Rv2929/-	(cc=0.3739)	info on Rv2929/-

Correlation of Rv1350/fabG2 with Rv3765c/tcrX

Normalized LFCs for Rv1350/fabG2:
(description and provenance of datasets)

	Rv1350/fabG2	Rv3765c/tcrX
Fe_supp_jason_reseq	0.535	0.309
low_pH_jason_reseq	0.323	-0.256
NO_jason_reseq	-1.168	-0.276
B6_jason_reseq	0.297	0.547
MHCII_jason_reseq	-1.007	0.536
Isoniazid02	0.729	0.166
Rifampicin4	0.55	-0.108
Ethambutol3	0.632	0.463
Meropenem3	0.506	0.056
Vancomycin16	0.6	0.674
Rv2680_day32	0.161	-0.121
H37Rv_KO_MarP	-0.045	0.282
hypoxia_3wks	-0.092	0.247
hypoxia_6wks	0.731	0.875
glycerol	-0.976	0.372
cholesterol	-1.939	0.151
AJ	1.997	0.776
Bibs02	-2.099	-0.287
Bibs02c	-0.041	0.84
BL6	0.116	0.725
BL6a	0.537	0.327
BXD01	0.931	-0.104
BXD010	0.347	0.636
BXD011	0.723	-0.211
BXD03	1.553	0.176
BXD04	0.847	-0.185
BXD05	0.444	-0.118
BXD06	0.421	0.278
BXD07	0.223	0.233
BXD08	0.771	-0.436
BXD09	0.521	0.09
CAST	-0.284	0.315
CCcont	0.427	-0.072
DS01	0.044	0.785
DS02	-0.414	0.857
DS04	1.102	0.533
DS0c	0.834	0.668
GP01	-0.477	1.007
GP02	1.057	1.229
GP0c	0.187	-0.772
NOD	0.74	0.264
NZO	0.0	1.123
PWK	1.093	0.698
H37Rv_KO_CtpC	-0.467	-0.591
H37Rv_KO_CtpD	1.335	0.573
H37Rv_KO_Rv1272	0.027	0.237
H37Rv_KO_SugABC	-0.285	0.324
H37Rv_KO_MbtN	-1.018	-1.647
Trans05	-0.344	0.789
macrophage_unactivated	0.114	-0.489
IL1	0.789	-0.104
Rapamycin	-0.055	0.015
Tcell	-0.371	-0.557
GMCSF	-0.459	0.214
IFNab	0.109	-0.26
IFNg	1.096	0.925
IFNg_GMCSF1	0.0	-0.336
Rv1432_day32	3.053	0.49
Rv1565c_day32	-1.772	-0.338
secA2_input	-3.283	-1.263
delta_Rv3594	-0.583	-0.115
delta_Rv3717	-0.479	-0.398
delta_Rv3811	-0.336	0.064
delta_Rv0954	-0.492	-0.019
PonA1	-0.826	0.335
EccD1_KO	0.158	-0.71
EspI_KO	0.462	-0.85
PE35_KO	0.837	-0.449
PPE68_KO	0.0	-0.953
glycerol2	0.398	0.44
lignocerate	1.433	0.852
oleate	-0.445	0.363
phosphatidylcholine	1.014	0.517
acetate	1.327	1.39
glucAc	1.202	1.109
Rv0950ko	-0.498	-0.277
Rv1096ko	-0.121	-0.262
Rv3684ko	0.187	-0.301
delta_otsA_trehalose	2.128	0.911