Influenza Virus Proteins
Replicated spatial point patterns giving the locations of two different virus proteins on the membranes of cells infected with influenza virus.
The data consist of 41 spatial point patterns, each giving the locations of two different virus proteins on the membranes of cells infected with influenza virus. Chen et al (2008) conducted the experiment and used spatial analysis to establish evidence for an interaction between the influenza virus proteins M1 and M2 that is important for the study of viral replication.
Canine kidney cells were infected with human influenza, Udorn strain, either the wild type or a mutant which encodes a defective M2 protein. At twelve hours post-infection, membrane sheets were prepared and stained for viral proteins, using two antibodies conjugated to gold particles of two sizes (6 nanometre and 12 nanometre diameter) enabling localisation of two different proteins on each sheet. The 6 nm particles were stained for M2 (ion channel protein), while the 12 nm particles were stained either for M1 (matrix protein) or for HA (hemagglutinin). Membrane sheets were visualised in electron microscopy. Experimental technique and spatial analysis of the membranes stained for M2 and M1 is reported in Chen et al (2008). Analysis of the membranes stained for M2 and HA is reported in Rossman et al (2010). The M2-HA data shows a stronger association between the two proteins which has also been observed biochemically and functionally (Rossman et al, 2010).
flu is a
with one row for each membrane sheet. The column named
contains the spatial point patterns of gold particle locations,
with two types of points (either
M2). The column named
is a factor identifying the virus: either wild type
mut1. The column named
stain is a factor
identifying whether the membrane was stained for
M1 and M2 (
stain="M2-M1") or stained for HA and M2
The row names of the hyperframe are a succinct summary of
the experimental conditions and can be used as labels
in plots. See the Examples.
Data generously provided by Dr G.P. Leser and Dr R.A. Lamb. Please cite Chen et al (2008) in any use of these data.
Chen, B.J., Leser, G.P., Jackson, D. and Lamb, R.A. (2008) The influenza virus M2 protein cytoplasmic tail interacts with the M1 protein and influences virus assembly at the site of virus budding. Journal of Virology 82, 10059--10070.
Rossman, J.S., Jing, X.H., Leser, G.P. and Lamb, R.A. (2010) Influenza virus M2 protein mediates ESCRT-independent membrane scission Cell 142, 902--913.
data(flu) flu Y <- flu$pattern Y <- flu[10, 1, drop=TRUE] wildM1 <- with(flu, virustype == "wt" & stain == "M2-M1") plot(flu[wildM1, 1, drop=TRUE], main=c("flu data", "wild type virus, M2-M1 stain"), pch=c(3,16), cex=0.4, cols=2:3)