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 Rv2267c/-

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

	Rv1350/fabG2	Rv2267c/-
Fe_supp_jason_reseq	0.535	0.944
low_pH_jason_reseq	0.323	-0.761
NO_jason_reseq	-1.168	-0.669
B6_jason_reseq	0.297	0.747
MHCII_jason_reseq	-1.007	0.244
Isoniazid02	0.729	-0.477
Rifampicin4	0.55	-0.596
Ethambutol3	0.632	-0.232
Meropenem3	0.506	-0.337
Vancomycin16	0.6	-0.467
Rv2680_day32	0.161	-0.567
H37Rv_KO_MarP	-0.045	-0.371
hypoxia_3wks	-0.092	-0.199
hypoxia_6wks	0.731	-0.294
glycerol	-0.976	-1.192
cholesterol	-1.939	-0.378
AJ	1.997	0.958
Bibs02	-2.099	0.494
Bibs02c	-0.041	0.3
BL6	0.116	0.305
BL6a	0.537	0.743
BXD01	0.931	0.362
BXD010	0.347	0.49
BXD011	0.723	0.599
BXD03	1.553	0.701
BXD04	0.847	0.375
BXD05	0.444	1.068
BXD06	0.421	0.656
BXD07	0.223	0.213
BXD08	0.771	0.519
BXD09	0.521	0.438
CAST	-0.284	0.774
CCcont	0.427	0.08
DS01	0.044	0.026
DS02	-0.414	0.435
DS04	1.102	0.758
DS0c	0.834	0.567
GP01	-0.477	-0.165
GP02	1.057	-0.096
GP0c	0.187	-0.168
NOD	0.74	0.28
NZO	0.0	0.867
PWK	1.093	2.141
H37Rv_KO_CtpC	-0.467	1.123
H37Rv_KO_CtpD	1.335	0.973
H37Rv_KO_Rv1272	0.027	1.409
H37Rv_KO_SugABC	-0.285	0.701
H37Rv_KO_MbtN	-1.018	-0.07
Trans05	-0.344	1.431
macrophage_unactivated	0.114	0.155
IL1	0.789	-1.097
Rapamycin	-0.055	-0.04
Tcell	-0.371	-0.042
GMCSF	-0.459	-0.275
IFNab	0.109	-0.357
IFNg	1.096	-0.035
IFNg_GMCSF1	0.0	-0.82
Rv1432_day32	3.053	0.022
Rv1565c_day32	-1.772	-0.355
secA2_input	-3.283	-1.988
delta_Rv3594	-0.583	0.078
delta_Rv3717	-0.479	-0.527
delta_Rv3811	-0.336	-0.842
delta_Rv0954	-0.492	-0.682
PonA1	-0.826	-0.405
EccD1_KO	0.158	0.654
EspI_KO	0.462	1.064
PE35_KO	0.837	1.61
PPE68_KO	0.0	1.907
glycerol2	0.398	-0.168
lignocerate	1.433	0.226
oleate	-0.445	0.197
phosphatidylcholine	1.014	0.336
acetate	1.327	-0.276
glucAc	1.202	0.115
Rv0950ko	-0.498	-0.329
Rv1096ko	-0.121	-0.299
Rv3684ko	0.187	-0.93
delta_otsA_trehalose	2.128	1.986