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 Rv3618/-:

update plot	correlation	link to info on gene
Rv3786c/-	(cc=0.573)	info on Rv3786c/-
Rv0312/-	(cc=0.5)	info on Rv0312/-
Rv1062/-	(cc=0.4966)	info on Rv1062/-
Rv2813/-	(cc=0.4937)	info on Rv2813/-
Rv3335c/-	(cc=0.4756)	info on Rv3335c/-
Rv0060/-	(cc=0.4688)	info on Rv0060/-
Rv3428c/-	(cc=0.4632)	info on Rv3428c/-
Rv2237/-	(cc=0.455)	info on Rv2237/-
Rv0445c/sigK	(cc=0.4529)	info on Rv0445c/sigK
Rv3703c/-	(cc=0.4512)	info on Rv3703c/-

Correlation of Rv3618/- with Rv2813/-

Normalized LFCs for Rv3618/-:
(description and provenance of datasets)

	Rv3618/-	Rv2813/-
Fe_supp_jason_reseq	-0.065	0.747
low_pH_jason_reseq	-0.505	-0.43
NO_jason_reseq	-0.053	-1.735
B6_jason_reseq	-0.153	-0.733
MHCII_jason_reseq	0.652	-0.396
Isoniazid02	0.0	0.054
Rifampicin4	-0.485	0.1
Ethambutol3	-0.033	-0.474
Meropenem3	-0.065	-0.724
Vancomycin16	-0.096	0.292
Rv2680_day32	-0.956	-0.423
H37Rv_KO_MarP	0.04	0.796
hypoxia_3wks	-0.355	-0.159
hypoxia_6wks	-0.405	-1.566
glycerol	0.209	1.164
cholesterol	0.377	0.835
AJ	0.435	0.299
Bibs02	-0.538	-0.517
Bibs02c	-0.271	0.0
BL6	0.362	0.575
BL6a	0.026	-0.422
BXD01	-0.217	0.552
BXD010	-0.334	-0.072
BXD011	0.064	0.63
BXD03	0.068	0.998
BXD04	-0.244	-0.305
BXD05	0.459	0.269
BXD06	-0.163	0.438
BXD07	-0.027	0.637
BXD08	-0.262	0.139
BXD09	0.07	0.81
CAST	0.185	0.707
CCcont	0.129	0.997
DS01	-0.394	0.725
DS02	0.187	0.714
DS04	-0.142	0.474
DS0c	-0.234	0.058
GP01	-0.233	-1.378
GP02	-0.47	-1.078
GP0c	-0.777	-1.263
NOD	1.699	3.207
NZO	0.416	0.487
PWK	0.388	0.794
H37Rv_KO_CtpC	-0.234	0.169
H37Rv_KO_CtpD	-0.26	-0.85
H37Rv_KO_Rv1272	-0.579	-0.74
H37Rv_KO_SugABC	1.365	0.152
H37Rv_KO_MbtN	0.154	-1.242
Trans05	-0.104	-0.074
macrophage_unactivated	-0.287	1.411
IL1	-0.424	0.632
Rapamycin	0.399	1.145
Tcell	-0.033	2.379
GMCSF	0.594	0.985
IFNab	-0.151	0.81
IFNg	0.128	2.157
IFNg_GMCSF1	0.886	0.842
Rv1432_day32	0.12	0.321
Rv1565c_day32	-1.06	1.03
secA2_input	0.618	0.2
delta_Rv3594	0.471	1.216
delta_Rv3717	0.513	0.938
delta_Rv3811	0.7	-0.269
delta_Rv0954	0.072	0.207
PonA1	0.42	1.027
EccD1_KO	-0.237	1.868
EspI_KO	-0.827	1.218
PE35_KO	-0.053	1.657
PPE68_KO	0.0	2.326
glycerol2	0.891	2.058
lignocerate	1.001	2.828
oleate	-0.231	-0.163
phosphatidylcholine	0.913	2.417
acetate	1.084	4.234
glucAc	1.245	3.129
Rv0950ko	0.691	-0.175
Rv1096ko	0.283	1.056
Rv3684ko	0.658	-0.806
delta_otsA_trehalose	0.168	0.15