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 Rv0456B/mazE1:

update plot	correlation	link to info on gene
Rv0160c/PE4	(cc=0.6442)	info on Rv0160c/PE4
Rv0399c/lpqK	(cc=0.5708)	info on Rv0399c/lpqK
Rv3191c/-	(cc=0.5655)	info on Rv3191c/-
Rv0197/-	(cc=0.5537)	info on Rv0197/-
Rv3397c/phyA	(cc=0.5418)	info on Rv3397c/phyA
Rv0975c/fadE13	(cc=0.5414)	info on Rv0975c/fadE13
Rv0343/iniC	(cc=0.54)	info on Rv0343/iniC
Rv1050/-	(cc=0.5391)	info on Rv1050/-
Rv3329/-	(cc=0.5298)	info on Rv3329/-
Rv0231/fadE4	(cc=0.529)	info on Rv0231/fadE4

Correlation of Rv0456B/mazE1 with Rv0975c/fadE13

Normalized LFCs for Rv0456B/mazE1:
(description and provenance of datasets)

	Rv0456B/mazE1	Rv0975c/fadE13
Fe_supp_jason_reseq	0.534	-0.218
low_pH_jason_reseq	-0.154	0.487
NO_jason_reseq	0.126	-0.42
B6_jason_reseq	0.382	0.689
MHCII_jason_reseq	0.572	-0.307
Isoniazid02	-2.183	-1.707
Rifampicin4	0.471	-0.59
Ethambutol3	-1.78	-1.673
Meropenem3	-1.887	-1.273
Vancomycin16	-0.796	-1.236
Rv2680_day32	0.44	-1.274
H37Rv_KO_MarP	-0.282	-0.22
hypoxia_3wks	0.0	0.112
hypoxia_6wks	-0.186	-0.399
glycerol	1.014	0.715
cholesterol	0.351	0.269
AJ	-0.773	0.413
Bibs02	0.91	0.819
Bibs02c	0.929	0.823
BL6	0.719	0.06
BL6a	1.343	0.485
BXD01	0.413	0.512
BXD010	0.671	0.01
BXD011	0.891	0.147
BXD03	-0.017	-0.238
BXD04	0.208	-0.062
BXD05	1.222	0.429
BXD06	0.799	0.441
BXD07	0.53	0.561
BXD08	0.189	0.367
BXD09	0.657	0.12
CAST	1.068	1.138
CCcont	0.52	0.138
DS01	0.664	1.069
DS02	0.912	0.052
DS04	0.899	0.512
DS0c	1.276	0.035
GP01	0.382	0.463
GP02	0.811	1.541
GP0c	0.062	0.877
NOD	0.962	0.809
NZO	0.152	0.185
PWK	-0.213	-0.148
H37Rv_KO_CtpC	0.298	0.498
H37Rv_KO_CtpD	0.479	-0.01
H37Rv_KO_Rv1272	0.329	0.697
H37Rv_KO_SugABC	0.156	0.39
H37Rv_KO_MbtN	0.13	1.526
Trans05	0.621	0.112
macrophage_unactivated	0.59	0.268
IL1	0.688	0.463
Rapamycin	1.154	0.344
Tcell	0.218	0.479
GMCSF	-0.378	0.481
IFNab	0.438	0.227
IFNg	0.096	0.027
IFNg_GMCSF1	1.477	0.267
Rv1432_day32	0.391	0.428
Rv1565c_day32	1.046	-0.643
secA2_input	-0.139	-0.081
delta_Rv3594	-0.473	-0.312
delta_Rv3717	-0.406	-0.37
delta_Rv3811	-0.352	-0.507
delta_Rv0954	-0.279	-0.818
PonA1	0.211	0.01
EccD1_KO	-0.816	0.654
EspI_KO	-0.57	0.448
PE35_KO	-0.193	-0.286
PPE68_KO	-0.576	-0.873
glycerol2	0.154	0.617
lignocerate	0.1	0.464
oleate	-0.16	0.671
phosphatidylcholine	0.123	0.51
acetate	-0.332	-0.075
glucAc	0.019	-0.047
Rv0950ko	0.419	0.585
Rv1096ko	-0.332	1.01
Rv3684ko	0.495	0.891
delta_otsA_trehalose	-0.366	-0.237