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 Rv0445c/sigK

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

	Rv3618/-	Rv0445c/sigK
Fe_supp_jason_reseq	-0.065	0.35
low_pH_jason_reseq	-0.505	-0.907
NO_jason_reseq	-0.053	0.032
B6_jason_reseq	-0.153	0.782
MHCII_jason_reseq	0.652	1.165
Isoniazid02	0.0	-0.381
Rifampicin4	-0.485	-0.211
Ethambutol3	-0.033	-0.306
Meropenem3	-0.065	-0.546
Vancomycin16	-0.096	-0.639
Rv2680_day32	-0.956	-0.195
H37Rv_KO_MarP	0.04	-0.113
hypoxia_3wks	-0.355	0.323
hypoxia_6wks	-0.405	-0.161
glycerol	0.209	1.213
cholesterol	0.377	0.305
AJ	0.435	0.195
Bibs02	-0.538	-0.085
Bibs02c	-0.271	0.244
BL6	0.362	0.105
BL6a	0.026	0.106
BXD01	-0.217	-0.06
BXD010	-0.334	0.66
BXD011	0.064	0.08
BXD03	0.068	-0.688
BXD04	-0.244	0.186
BXD05	0.459	0.364
BXD06	-0.163	0.068
BXD07	-0.027	0.166
BXD08	-0.262	0.124
BXD09	0.07	-0.104
CAST	0.185	0.43
CCcont	0.129	0.279
DS01	-0.394	0.289
DS02	0.187	0.647
DS04	-0.142	0.388
DS0c	-0.234	0.52
GP01	-0.233	-2.008
GP02	-0.47	-1.771
GP0c	-0.777	-0.613
NOD	1.699	0.908
NZO	0.416	-0.127
PWK	0.388	-0.105
H37Rv_KO_CtpC	-0.234	1.693
H37Rv_KO_CtpD	-0.26	-0.209
H37Rv_KO_Rv1272	-0.579	-0.109
H37Rv_KO_SugABC	1.365	0.458
H37Rv_KO_MbtN	0.154	-0.657
Trans05	-0.104	0.32
macrophage_unactivated	-0.287	0.161
IL1	-0.424	0.255
Rapamycin	0.399	0.47
Tcell	-0.033	-0.134
GMCSF	0.594	0.0
IFNab	-0.151	0.33
IFNg	0.128	0.107
IFNg_GMCSF1	0.886	0.126
Rv1432_day32	0.12	0.722
Rv1565c_day32	-1.06	-0.605
secA2_input	0.618	0.257
delta_Rv3594	0.471	0.038
delta_Rv3717	0.513	0.115
delta_Rv3811	0.7	0.57
delta_Rv0954	0.072	0.483
PonA1	0.42	0.309
EccD1_KO	-0.237	-0.174
EspI_KO	-0.827	0.359
PE35_KO	-0.053	-0.268
PPE68_KO	0.0	-0.358
glycerol2	0.891	0.971
lignocerate	1.001	1.269
oleate	-0.231	0.587
phosphatidylcholine	0.913	1.158
acetate	1.084	0.864
glucAc	1.245	0.42
Rv0950ko	0.691	0.522
Rv1096ko	0.283	0.956
Rv3684ko	0.658	0.734
delta_otsA_trehalose	0.168	1.013