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 Rv3547/ddn:

update plot	correlation	link to info on gene
Rv1810/-	(cc=0.3693)	info on Rv1810/-
Rv1748/-	(cc=0.3647)	info on Rv1748/-
Rv2080/lppJ	(cc=0.3504)	info on Rv2080/lppJ
Rv1914c/-	(cc=0.3435)	info on Rv1914c/-
Rv3158/nuoN	(cc=0.337)	info on Rv3158/nuoN
Rv1472/echA12	(cc=0.3354)	info on Rv1472/echA12
Rv1951c/-	(cc=0.3263)	info on Rv1951c/-
Rv2456c/-	(cc=0.3259)	info on Rv2456c/-
Rv0755A/-	(cc=0.3256)	info on Rv0755A/-
Rv1885c/-	(cc=0.3226)	info on Rv1885c/-

Correlation of Rv3547/ddn with Rv1914c/-

Normalized LFCs for Rv3547/ddn:
(description and provenance of datasets)

	Rv3547/ddn	Rv1914c/-
Fe_supp_jason_reseq	-0.3	0.174
low_pH_jason_reseq	-0.744	-1.084
NO_jason_reseq	-0.129	-0.026
B6_jason_reseq	1.055	-0.392
MHCII_jason_reseq	-0.104	-0.923
Isoniazid02	-0.613	0.044
Rifampicin4	0.309	-0.276
Ethambutol3	0.738	0.08
Meropenem3	-0.062	0.328
Vancomycin16	0.218	0.157
Rv2680_day32	-0.01	0.221
H37Rv_KO_MarP	0.591	-0.155
hypoxia_3wks	0.0	0.778
hypoxia_6wks	-0.044	-0.109
glycerol	-0.459	-0.742
cholesterol	-0.931	-0.967
AJ	-0.113	-0.58
Bibs02	-0.117	-0.672
Bibs02c	0.106	0.138
BL6	0.735	0.906
BL6a	0.6	1.72
BXD01	0.497	1.023
BXD010	-0.082	0.909
BXD011	0.065	1.315
BXD03	-0.1	1.509
BXD04	0.734	0.999
BXD05	-0.191	1.235
BXD06	0.08	0.98
BXD07	0.547	1.029
BXD08	0.249	1.121
BXD09	0.386	1.031
CAST	0.269	0.087
CCcont	0.376	0.383
DS01	-0.236	-0.9
DS02	-0.205	-1.534
DS04	0.063	0.36
DS0c	-0.456	-1.409
GP01	-0.466	1.159
GP02	0.162	1.46
GP0c	0.173	0.41
NOD	-0.177	0.626
NZO	-0.826	0.038
PWK	-0.705	-0.516
H37Rv_KO_CtpC	-0.179	0.288
H37Rv_KO_CtpD	-0.814	0.372
H37Rv_KO_Rv1272	1.26	1.048
H37Rv_KO_SugABC	0.773	1.601
H37Rv_KO_MbtN	0.652	0.574
Trans05	0.638	1.927
macrophage_unactivated	0.619	0.29
IL1	-0.323	0.252
Rapamycin	0.068	-1.028
Tcell	0.766	-0.424
GMCSF	-0.288	0.169
IFNab	-0.635	-0.157
IFNg	-0.061	0.096
IFNg_GMCSF1	-0.17	0.223
Rv1432_day32	-0.275	-0.446
Rv1565c_day32	0.324	0.684
secA2_input	0.64	-1.794
delta_Rv3594	0.415	1.834
delta_Rv3717	-0.083	-0.311
delta_Rv3811	-0.336	1.072
delta_Rv0954	0.376	0.443
PonA1	0.893	0.569
EccD1_KO	0.27	-0.184
EspI_KO	-0.573	-0.841
PE35_KO	-0.038	0.933
PPE68_KO	0.243	1.232
glycerol2	0.157	0.385
lignocerate	0.432	-0.239
oleate	0.129	0.39
phosphatidylcholine	0.345	0.676
acetate	-0.203	-0.598
glucAc	0.012	-0.65
Rv0950ko	0.133	-0.259
Rv1096ko	0.35	-0.075
Rv3684ko	-0.92	0.344
delta_otsA_trehalose	0.054	-0.138