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 Rv3224B/-:

update plot	correlation	link to info on gene
Rv3224A/-	(cc=0.5299)	info on Rv3224A/-
Rv3335c/-	(cc=0.522)	info on Rv3335c/-
Rv2077A/-	(cc=0.5179)	info on Rv2077A/-
Rv0060/-	(cc=0.5046)	info on Rv0060/-
Rv3819/-	(cc=0.4792)	info on Rv3819/-
Rv3127/-	(cc=0.4743)	info on Rv3127/-
Rv2821c/-	(cc=0.473)	info on Rv2821c/-
Rv0312/-	(cc=0.4683)	info on Rv0312/-
Rv0042c/-	(cc=0.4667)	info on Rv0042c/-
Rv1987/-	(cc=0.4655)	info on Rv1987/-

Correlation of Rv3224B/- with Rv2077A/-

Normalized LFCs for Rv3224B/-:
(description and provenance of datasets)

	Rv3224B/-	Rv2077A/-
Fe_supp_jason_reseq	1.613	0.726
low_pH_jason_reseq	0.582	-0.731
NO_jason_reseq	1.003	0.302
B6_jason_reseq	1.336	0.605
MHCII_jason_reseq	-0.043	-0.083
Isoniazid02	0.0	0.519
Rifampicin4	0.43	1.175
Ethambutol3	-0.204	0.283
Meropenem3	2.432	2.531
Vancomycin16	-0.202	0.921
Rv2680_day32	1.574	-0.608
H37Rv_KO_MarP	-0.34	-0.825
hypoxia_3wks	-1.798	-0.072
hypoxia_6wks	-0.764	0.681
glycerol	-1.318	-0.806
cholesterol	-0.644	-0.203
AJ	0.338	0.306
Bibs02	1.041	1.582
Bibs02c	0.32	-1.131
BL6	2.331	0.097
BL6a	0.016	-0.165
BXD01	0.306	0.304
BXD010	-0.741	0.681
BXD011	-0.167	0.598
BXD03	0.361	-0.158
BXD04	0.999	0.939
BXD05	-0.022	-0.235
BXD06	-0.239	-0.233
BXD07	0.12	0.183
BXD08	0.422	0.373
BXD09	-0.917	0.014
CAST	0.384	0.424
CCcont	0.0	0.672
DS01	-0.905	-0.25
DS02	0.156	-0.9
DS04	-1.487	0.422
DS0c	-1.483	0.248
GP01	0.393	-0.469
GP02	-1.146	-1.351
GP0c	0.18	-1.232
NOD	-0.037	0.981
NZO	0.829	0.35
PWK	-0.134	0.737
H37Rv_KO_CtpC	-1.011	0.804
H37Rv_KO_CtpD	2.225	-0.642
H37Rv_KO_Rv1272	-1.207	-0.058
H37Rv_KO_SugABC	-0.776	-1.562
H37Rv_KO_MbtN	0.961	0.591
Trans05	0.957	1.343
macrophage_unactivated	1.285	2.216
IL1	-1.99	-0.828
Rapamycin	-0.546	-1.7
Tcell	1.942	0.935
GMCSF	-0.784	-0.586
IFNab	-0.426	-0.671
IFNg	0.583	-0.85
IFNg_GMCSF1	-1.2	-1.32
Rv1432_day32	0.321	-0.365
Rv1565c_day32	-1.093	-0.193
secA2_input	0.167	1.224
delta_Rv3594	0.382	0.034
delta_Rv3717	-1.565	0.315
delta_Rv3811	1.008	0.665
delta_Rv0954	0.27	0.028
PonA1	-0.851	-0.025
EccD1_KO	-1.092	0.645
EspI_KO	-2.738	0.225
PE35_KO	-2.033	0.099
PPE68_KO	-0.749	-0.112
glycerol2	2.191	1.62
lignocerate	2.565	1.939
oleate	-1.167	-0.282
phosphatidylcholine	2.333	1.745
acetate	3.501	1.983
glucAc	2.476	2.2
Rv0950ko	0.112	0.54
Rv1096ko	0.531	1.327
Rv3684ko	0.062	0.036
delta_otsA_trehalose	-0.835	0.281