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 Rv2659c/-:

update plot	correlation	link to info on gene
Rv3233c/-	(cc=0.5755)	info on Rv3233c/-
Rv1148c/-	(cc=0.5287)	info on Rv1148c/-
Rv2724c/fadE20	(cc=0.4854)	info on Rv2724c/fadE20
Rv2639c/-	(cc=0.4588)	info on Rv2639c/-
Rv1962c/vapC35	(cc=0.4575)	info on Rv1962c/vapC35
Rv3478/PPE60	(cc=0.4538)	info on Rv3478/PPE60
Rv3067/-	(cc=0.4331)	info on Rv3067/-
Rv3566c/nat	(cc=0.4296)	info on Rv3566c/nat
Rv2628/-	(cc=0.4188)	info on Rv2628/-
Rv2489c/-	(cc=0.4167)	info on Rv2489c/-

Correlation of Rv2659c/- with Rv1148c/-

Normalized LFCs for Rv2659c/-:
(description and provenance of datasets)

	Rv2659c/-	Rv1148c/-
Fe_supp_jason_reseq	0.035	-0.382
low_pH_jason_reseq	-0.545	0.241
NO_jason_reseq	-0.029	0.302
B6_jason_reseq	-0.051	0.404
MHCII_jason_reseq	0.522	0.684
Isoniazid02	-0.01	-1.86
Rifampicin4	-0.227	-0.422
Ethambutol3	-0.091	-1.462
Meropenem3	-1.854	-1.765
Vancomycin16	-1.393	-1.321
Rv2680_day32	0.397	0.029
H37Rv_KO_MarP	0.277	0.357
hypoxia_3wks	-0.163	0.04
hypoxia_6wks	-0.163	0.061
glycerol	-0.268	-0.771
cholesterol	-0.358	-0.533
AJ	0.627	0.751
Bibs02	0.615	-0.142
Bibs02c	-0.023	0.409
BL6	-0.11	-0.781
BL6a	0.022	0.152
BXD01	-0.005	-0.755
BXD010	-0.093	-0.426
BXD011	0.129	-0.398
BXD03	0.005	-0.259
BXD04	0.088	-0.537
BXD05	-0.265	-0.062
BXD06	0.0	-0.54
BXD07	0.238	-0.611
BXD08	0.366	-0.47
BXD09	-0.186	-0.338
CAST	0.179	0.392
CCcont	-0.454	-1.578
DS01	0.421	0.046
DS02	0.326	0.085
DS04	0.37	0.72
DS0c	0.393	0.256
GP01	0.747	-0.269
GP02	-0.669	-0.582
GP0c	-0.12	-0.645
NOD	1.3	-0.225
NZO	0.452	0.526
PWK	0.81	0.342
H37Rv_KO_CtpC	0.175	0.277
H37Rv_KO_CtpD	-0.41	-0.184
H37Rv_KO_Rv1272	0.529	-0.7
H37Rv_KO_SugABC	0.774	-0.22
H37Rv_KO_MbtN	-0.108	-0.173
Trans05	-0.317	-0.159
macrophage_unactivated	-0.325	-0.748
IL1	-0.359	-0.113
Rapamycin	-0.279	-0.46
Tcell	-0.072	-0.665
GMCSF	0.087	0.024
IFNab	-0.366	-0.266
IFNg	0.406	0.126
IFNg_GMCSF1	0.05	0.116
Rv1432_day32	0.708	0.164
Rv1565c_day32	0.706	0.652
secA2_input	0.146	0.177
delta_Rv3594	0.56	0.601
delta_Rv3717	0.028	0.563
delta_Rv3811	0.561	0.552
delta_Rv0954	0.267	0.762
PonA1	-0.364	0.321
EccD1_KO	0.408	0.576
EspI_KO	0.322	0.975
PE35_KO	0.265	0.28
PPE68_KO	0.499	1.062
glycerol2	-0.076	-0.08
lignocerate	-0.211	-0.348
oleate	0.546	0.213
phosphatidylcholine	0.412	0.108
acetate	-0.687	-0.52
glucAc	-0.896	-0.797
Rv0950ko	0.081	-0.211
Rv1096ko	0.211	0.446
Rv3684ko	-0.183	0.219
delta_otsA_trehalose	-0.7	0.487