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 Rv3786c/-

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

	Rv3618/-	Rv3786c/-
Fe_supp_jason_reseq	-0.065	-0.2
low_pH_jason_reseq	-0.505	-0.03
NO_jason_reseq	-0.053	-0.386
B6_jason_reseq	-0.153	0.123
MHCII_jason_reseq	0.652	0.456
Isoniazid02	0.0	-0.294
Rifampicin4	-0.485	-0.255
Ethambutol3	-0.033	0.107
Meropenem3	-0.065	0.046
Vancomycin16	-0.096	-0.342
Rv2680_day32	-0.956	-0.634
H37Rv_KO_MarP	0.04	0.477
hypoxia_3wks	-0.355	-0.191
hypoxia_6wks	-0.405	-0.441
glycerol	0.209	0.171
cholesterol	0.377	0.142
AJ	0.435	0.008
Bibs02	-0.538	-0.419
Bibs02c	-0.271	0.468
BL6	0.362	-0.53
BL6a	0.026	-0.089
BXD01	-0.217	-0.794
BXD010	-0.334	-0.615
BXD011	0.064	0.351
BXD03	0.068	-0.544
BXD04	-0.244	-0.909
BXD05	0.459	-0.295
BXD06	-0.163	-0.566
BXD07	-0.027	-0.49
BXD08	-0.262	-0.535
BXD09	0.07	-0.604
CAST	0.185	-0.043
CCcont	0.129	-0.236
DS01	-0.394	0.263
DS02	0.187	0.139
DS04	-0.142	0.718
DS0c	-0.234	0.597
GP01	-0.233	-0.277
GP02	-0.47	-0.395
GP0c	-0.777	-0.339
NOD	1.699	0.607
NZO	0.416	0.142
PWK	0.388	0.179
H37Rv_KO_CtpC	-0.234	-0.379
H37Rv_KO_CtpD	-0.26	0.137
H37Rv_KO_Rv1272	-0.579	-0.536
H37Rv_KO_SugABC	1.365	0.194
H37Rv_KO_MbtN	0.154	-0.05
Trans05	-0.104	-0.125
macrophage_unactivated	-0.287	-0.54
IL1	-0.424	0.062
Rapamycin	0.399	-0.064
Tcell	-0.033	0.023
GMCSF	0.594	0.354
IFNab	-0.151	0.423
IFNg	0.128	-0.607
IFNg_GMCSF1	0.886	0.173
Rv1432_day32	0.12	-0.274
Rv1565c_day32	-1.06	-1.112
secA2_input	0.618	0.235
delta_Rv3594	0.471	-0.682
delta_Rv3717	0.513	-0.49
delta_Rv3811	0.7	-0.083
delta_Rv0954	0.072	-0.105
PonA1	0.42	0.26
EccD1_KO	-0.237	0.0
EspI_KO	-0.827	-0.271
PE35_KO	-0.053	-0.478
PPE68_KO	0.0	-0.342
glycerol2	0.891	0.434
lignocerate	1.001	1.033
oleate	-0.231	-0.118
phosphatidylcholine	0.913	0.549
acetate	1.084	0.637
glucAc	1.245	0.633
Rv0950ko	0.691	1.007
Rv1096ko	0.283	0.422
Rv3684ko	0.658	0.567
delta_otsA_trehalose	0.168	-0.024