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 Rv1711/-:

update plot	correlation	link to info on gene
Rv0811c/-	(cc=0.6035)	info on Rv0811c/-
Rv2548A/-	(cc=0.5225)	info on Rv2548A/-
Rv3741c/-	(cc=0.5046)	info on Rv3741c/-
Rv0589/mce2A	(cc=0.4985)	info on Rv0589/mce2A
Rv2581c/-	(cc=0.4905)	info on Rv2581c/-
Rv3905c/esxF	(cc=0.4859)	info on Rv3905c/esxF
Rv2195/qcrA	(cc=0.4838)	info on Rv2195/qcrA
Rv2880c/-	(cc=0.4759)	info on Rv2880c/-
Rv3748/-	(cc=0.4688)	info on Rv3748/-
Rv0990c/-	(cc=0.4576)	info on Rv0990c/-

Correlation of Rv1711/- with Rv3741c/-

Normalized LFCs for Rv1711/-:
(description and provenance of datasets)

	Rv1711/-	Rv3741c/-
Fe_supp_jason_reseq	0.218	0.341
low_pH_jason_reseq	0.0	-0.241
NO_jason_reseq	0.0	-0.801
B6_jason_reseq	0.0	0.089
MHCII_jason_reseq	0.0	-0.455
Isoniazid02	0.0	0.079
Rifampicin4	0.374	0.092
Ethambutol3	0.461	1.434
Meropenem3	0.0	-0.05
Vancomycin16	0.0	0.196
Rv2680_day32	0.0	0.399
H37Rv_KO_MarP	0.195	0.114
hypoxia_3wks	0.0	-0.439
hypoxia_6wks	0.0	0.301
glycerol	0.0	-0.407
cholesterol	0.0	0.039
AJ	0.0	-0.113
Bibs02	0.0	-0.592
Bibs02c	0.0	-0.696
BL6	0.0	0.025
BL6a	0.0	-0.027
BXD01	0.0	-0.169
BXD010	0.0	-0.475
BXD011	0.0	0.018
BXD03	0.0	-0.228
BXD04	0.0	0.364
BXD05	0.0	0.483
BXD06	0.0	-0.037
BXD07	0.0	0.4
BXD08	0.0	-0.018
BXD09	0.0	0.324
CAST	0.0	-0.445
CCcont	0.0	0.303
DS01	0.0	0.505
DS02	0.0	0.03
DS04	0.0	-0.164
DS0c	0.0	-0.509
GP01	0.0	-0.973
GP02	0.0	-0.626
GP0c	0.0	-0.942
NOD	0.0	-0.967
NZO	0.0	-1.263
PWK	0.0	-1.475
H37Rv_KO_CtpC	0.0	0.011
H37Rv_KO_CtpD	0.0	-0.107
H37Rv_KO_Rv1272	0.0	-1.813
H37Rv_KO_SugABC	0.0	-0.184
H37Rv_KO_MbtN	0.103	0.232
Trans05	0.0	-0.536
macrophage_unactivated	0.0	-0.076
IL1	0.0	0.184
Rapamycin	0.0	0.675
Tcell	0.0	-0.026
GMCSF	0.0	-0.127
IFNab	0.0	0.478
IFNg	0.0	-0.521
IFNg_GMCSF1	0.0	0.05
Rv1432_day32	0.0	0.872
Rv1565c_day32	0.0	-0.362
secA2_input	-0.593	0.302
delta_Rv3594	-0.635	-2.14
delta_Rv3717	-1.114	-1.552
delta_Rv3811	-0.501	-0.669
delta_Rv0954	-1.632	-1.243
PonA1	-0.898	-0.21
EccD1_KO	0.414	1.006
EspI_KO	1.791	0.707
PE35_KO	0.0	0.117
PPE68_KO	0.0	0.339
glycerol2	0.0	0.39
lignocerate	0.0	0.553
oleate	0.0	0.323
phosphatidylcholine	0.0	0.147
acetate	0.0	0.407
glucAc	0.0	0.021
Rv0950ko	0.416	1.273
Rv1096ko	0.793	0.492
Rv3684ko	0.452	1.601
delta_otsA_trehalose	-0.122	-0.527