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 Rv0160c/PE4

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

	Rv0456B/mazE1	Rv0160c/PE4
Fe_supp_jason_reseq	0.534	0.011
low_pH_jason_reseq	-0.154	-0.07
NO_jason_reseq	0.126	-0.11
B6_jason_reseq	0.382	0.416
MHCII_jason_reseq	0.572	0.302
Isoniazid02	-2.183	-1.8
Rifampicin4	0.471	0.208
Ethambutol3	-1.78	-0.931
Meropenem3	-1.887	-1.482
Vancomycin16	-0.796	-0.836
Rv2680_day32	0.44	-0.088
H37Rv_KO_MarP	-0.282	0.748
hypoxia_3wks	0.0	-0.191
hypoxia_6wks	-0.186	-0.175
glycerol	1.014	0.471
cholesterol	0.351	0.477
AJ	-0.773	0.062
Bibs02	0.91	0.886
Bibs02c	0.929	0.584
BL6	0.719	0.188
BL6a	1.343	0.375
BXD01	0.413	-0.029
BXD010	0.671	-0.023
BXD011	0.891	0.241
BXD03	-0.017	0.15
BXD04	0.208	0.354
BXD05	1.222	0.048
BXD06	0.799	0.316
BXD07	0.53	0.182
BXD08	0.189	0.338
BXD09	0.657	0.032
CAST	1.068	0.427
CCcont	0.52	-0.148
DS01	0.664	0.281
DS02	0.912	0.584
DS04	0.899	0.126
DS0c	1.276	-0.141
GP01	0.382	0.358
GP02	0.811	1.382
GP0c	0.062	-0.229
NOD	0.962	0.364
NZO	0.152	0.887
PWK	-0.213	0.193
H37Rv_KO_CtpC	0.298	0.447
H37Rv_KO_CtpD	0.479	1.091
H37Rv_KO_Rv1272	0.329	1.015
H37Rv_KO_SugABC	0.156	0.612
H37Rv_KO_MbtN	0.13	0.485
Trans05	0.621	0.807
macrophage_unactivated	0.59	-0.354
IL1	0.688	0.098
Rapamycin	1.154	0.239
Tcell	0.218	-0.248
GMCSF	-0.378	-0.09
IFNab	0.438	0.039
IFNg	0.096	0.294
IFNg_GMCSF1	1.477	0.085
Rv1432_day32	0.391	0.339
Rv1565c_day32	1.046	0.458
secA2_input	-0.139	-0.333
delta_Rv3594	-0.473	-0.099
delta_Rv3717	-0.406	-0.239
delta_Rv3811	-0.352	-0.223
delta_Rv0954	-0.279	0.358
PonA1	0.211	0.126
EccD1_KO	-0.816	-0.444
EspI_KO	-0.57	0.074
PE35_KO	-0.193	-0.446
PPE68_KO	-0.576	-0.221
glycerol2	0.154	0.276
lignocerate	0.1	0.284
oleate	-0.16	0.216
phosphatidylcholine	0.123	0.387
acetate	-0.332	0.083
glucAc	0.019	0.264
Rv0950ko	0.419	0.479
Rv1096ko	-0.332	-0.13
Rv3684ko	0.495	0.134
delta_otsA_trehalose	-0.366	0.026