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 Rv3714c/-:

update plot	correlation	link to info on gene
Rv0233/nrdB	(cc=0.5081)	info on Rv0233/nrdB
Rv0592/mce2D	(cc=0.4955)	info on Rv0592/mce2D
Rv3733c/-	(cc=0.4877)	info on Rv3733c/-
Rv0395/-	(cc=0.469)	info on Rv0395/-
Rv2994/-	(cc=0.4678)	info on Rv2994/-
Rv2771c/-	(cc=0.4464)	info on Rv2771c/-
Rv3696c/glpK	(cc=0.4447)	info on Rv3696c/glpK
Rv1318c/-	(cc=0.4427)	info on Rv1318c/-
Rv1135A/-	(cc=0.4413)	info on Rv1135A/-
Rv0303/-	(cc=0.4338)	info on Rv0303/-

Correlation of Rv3714c/- with Rv0592/mce2D

Normalized LFCs for Rv3714c/-:
(description and provenance of datasets)

	Rv3714c/-	Rv0592/mce2D
Fe_supp_jason_reseq	-0.398	0.622
low_pH_jason_reseq	-0.363	-0.049
NO_jason_reseq	0.011	0.144
B6_jason_reseq	0.719	0.552
MHCII_jason_reseq	1.035	0.342
Isoniazid02	0.778	0.06
Rifampicin4	-0.011	-0.68
Ethambutol3	0.55	-0.43
Meropenem3	-0.108	0.497
Vancomycin16	1.387	0.109
Rv2680_day32	0.488	-0.357
H37Rv_KO_MarP	0.169	-0.135
hypoxia_3wks	0.49	-0.124
hypoxia_6wks	1.184	0.217
glycerol	-1.508	-0.298
cholesterol	-0.909	-0.358
AJ	0.202	0.299
Bibs02	-0.147	0.323
Bibs02c	0.108	0.488
BL6	-0.168	0.835
BL6a	-0.013	0.08
BXD01	0.43	0.599
BXD010	0.139	0.212
BXD011	0.21	-0.054
BXD03	0.323	0.56
BXD04	0.597	0.261
BXD05	-0.14	0.072
BXD06	0.267	-0.134
BXD07	0.08	0.127
BXD08	0.297	0.171
BXD09	0.279	-0.142
CAST	0.607	0.889
CCcont	-0.643	-0.173
DS01	0.433	0.577
DS02	0.651	0.227
DS04	1.023	0.943
DS0c	0.638	0.732
GP01	-0.144	0.521
GP02	0.641	0.055
GP0c	-0.46	-0.255
NOD	1.111	0.473
NZO	0.526	0.257
PWK	0.367	0.347
H37Rv_KO_CtpC	-0.288	0.517
H37Rv_KO_CtpD	0.055	0.525
H37Rv_KO_Rv1272	-1.053	-0.122
H37Rv_KO_SugABC	-0.819	-1.55
H37Rv_KO_MbtN	-0.526	-0.273
Trans05	-0.625	-0.716
macrophage_unactivated	0.095	0.48
IL1	0.0	-0.122
Rapamycin	-0.19	0.239
Tcell	0.935	0.375
GMCSF	0.079	0.401
IFNab	-0.333	-0.06
IFNg	-0.029	0.259
IFNg_GMCSF1	-0.072	0.126
Rv1432_day32	1.288	1.352
Rv1565c_day32	0.158	0.377
secA2_input	0.769	-0.081
delta_Rv3594	-0.971	0.121
delta_Rv3717	-0.799	-0.247
delta_Rv3811	-1.387	-0.223
delta_Rv0954	-1.0	-0.654
PonA1	-0.336	0.069
EccD1_KO	-0.697	-0.664
EspI_KO	-0.371	-0.359
PE35_KO	-0.446	-0.89
PPE68_KO	-0.403	-0.586
glycerol2	-0.661	-0.021
lignocerate	-0.621	-0.253
oleate	-0.793	-0.223
phosphatidylcholine	-0.793	-0.085
acetate	-1.614	-0.374
glucAc	-0.741	-0.529
Rv0950ko	0.724	0.89
Rv1096ko	0.552	0.983
Rv3684ko	0.196	-0.193
delta_otsA_trehalose	0.411	3.282