Electronic Automated Measurement User System (EAMUS™)

Syntactic Structure Analysis

The syntactic structure analysis program is an appropriate program to measure the spatial distribution and inter-object relation
within an image. It can be applied to all measurement programs with the exception of stereology measurements. It is based upon the
construction of relational graphs and the theory of structural entropy. The results are related to the underlying objects, i.e., nuclei,
membranes, vessels, or FISH signals. Therefore, the output results will differ from each other depending upon the underlying basic
measurements, especially for FISH.

The syntactic structure measurement program for FISH will provide you with the following results:

mean star red: mean number of stars (MST neighbors) of FISH-red signals
stnd star red: standard deviation of mean number of FISH-red stars
mean distance mst red: mean distance between MST FISH-red neighbors
stnd distance mst red: standard deviation of mean distance MST FISH-red signals
mean dif no FISH red (mst): mean variation of distance between MST FISH-red signals
stnd dif FISH red: standard deviation of mean variation of distance between MST FISH-red signals
mean E(MST) FISH distance red: mean MST entropy (distance only) of FISH-red signals
stnd E(MST)FISH distance red: standard deviation of MST entropy (distance only) of FISH-red signals
mean E(MST) No FISH red: mean MST entropy (FISH-red signals per nucleus)
stnd E(MST) No FISH red: standard deviation of MST entropy (FISH-red signals per nucleus)
mean total E(MST) FISH red: mean total MST entropy of FISH-red signals;
stnd total E(MST) FISH red: standard deviation of total MST entropy of FISH-red signals
mean No cell(1*FISH red)/clust): mean number of nuclei with one FISH-red signal per spatial cluster
stnd No cell (1*FISH red)/clust): standard deviation of number of nuclei with one FISH-red signal per spatial cluster
mean No cell(2*FISH red)/clust): mean number of nuclei with two FISH-red signals per spatial cluster
stnd No cell (2*FISH red)/clust): standard deviation of number of nuclei with two FISH-red signals per spatial cluster
mean No cell(3*FISH red)/clust): mean number of nuclei with three FISH-red signals per spatial cluster
stnd No cell (3*FISH red)/clust): standard deviation of number of nuclei with three FISH-red signals per spatial cluster
mean No cell(4*FISH red)/clust): mean number of nuclei with four FISH-red signals per spatial cluster
stnd No cell (4*FISH red)/clust): standard deviation of number of nuclei with four FISH-red signals per spatial cluster
mean No cell(5*FISH red)/clust): mean number of nuclei with five FISH-red signals per spatial cluster
stnd No cell (5*FISH red)/clust): standard deviation of number of nuclei with five FISH-red signals per spatial cluster
mean No cell(6*FISH red)/clust): mean number of nuclei with six FISH-red signals per spatial cluster
stnd No cell (6*FISH red)/clust): standard deviation of number of nuclei with six FISH-red signals per spatial cluster
mean No cell(7*FISH red)/clust): mean number of nuclei with seven FISH-red signals per spatial cluster
stnd No cell (7*FISH red)/clust): standard deviation of number of nuclei with seven FISH-red signals per spatial cluster
mean No cell(8*FISH red)/clust): mean number of nuclei with eight FISH-red signals per spatial cluster
stnd No cell (8*FISH red)/clust): standard deviation of number of nuclei with eight FISH-red signals per spatial cluster
mean dist (1*FISH red): mean distance between FISH-red signals in spatial clusters with one FISH-red signal per nucleus
stnd dist (1*FISH red): standard deviation of distance between FISH-red signals in spatial clusters with two FISH-red
signals per nucleus
mean dist (2*FISH red): mean distance between FISH-red signals in spatial clusters with two FISH-red signals per nucleus
stnd dist (2*FISH red): standard deviation of distance between FISH-red signals in spatial clusters with two FISH-red
signal per nucleus
mean dist (3*FISH red): mean distance between FISH-red signals in spatial clusters with three FISH-red signals per nucleus
stnd dist (3*FISH red): standard deviation of distance between FISH-red signals in spatial clusters with three FISH-red
signal per nucleus
mean dist (4*FISH red): mean distance between FISH-red signals in spatial clusters with four FISH-red signals per nucleus
stnd dist (4*FISH red): standard deviation of distance between FISH-red signals in spatial clusters with four FISH-red
signal per nucleus
mean dist (5*FISH red): mean distance between FISH-red signals in spatial clusters with four FISH-red signals per nucleus
stnd dist (5*FISH red): standard deviation of distance between FISH-red signals in spatial clusters with four FISH-red
signal per nucleus
mean dist (6*FISH red): mean distance between FISH-red signals in spatial clusters with six FISH-red signals per nucleus
stnd dist (6*FISH red): standard deviation of distance between FISH-red signals in spatial clusters with six FISH-red
signal per nucleus
mean dist (7*FISH red): mean distance between FISH-red signals in spatial clusters with seven FISH-red signals per nucleus
stnd dist (7*FISH red): standard deviation of distance between FISH-red signals in spatial clusters with seven FISH-red
signal per nucleus
mean dist (8*FISH red): mean distance between FISH-red signals in spatial clusters with eight FISH-red signals per nucleus
stnd dist (8*FISH red): standard deviation of distance between FISH-red signals in spatial clusters with eight FISH-red
signal per nucleus
mean star green: mean number of stars (MST neighbors) of FISH-green signals
stnd star green: standard deviation of mean number of FISH-green stars
mean distance mst green: mean distance between MST FISH-green neighbors
stnd distance mst green: standard deviation of mean distance MST FISH-green signals
mean dif no FISH green (mst): mean variation of distance between MST FISH-green signals
stnd dif FISH green: standard deviation of mean variation of distance between MST FISH-green signals
mean E(MST) FISH distance green: mean MST entropy (distance only) of FISH-green signals
stnd E(MST)FISH distance green: standard deviation of MST entropy (distance only) of FISH-green signals
mean E(MST) No FISH green: mean MST entropy (FISH-green signals per nucleus)
stnd E(MST) No FISH green: standard deviation of MST entropy (FISH-green signals per nucleus)
mean total E(MST) FISH green: mean total MST entropy of FISH-green signals
stnd total E(MST) FISH green: standard deviation of total MST entropy of FISH-green signals
mean No cell(1*FISH green)/clust): mean number of nuclei with one FISH-green signal per spatial cluster
stnd No cell (1*FISH green)/clust): standard deviation of number of nuclei with one FISH-green signal per spatial cluster
mean No cell(2*FISH green)/clust): mean number of nuclei with two FISH-green signals per spatial cluster
stnd No cell (2*FISH green)/clust): standard deviation of number of nuclei with two FISH-green signals per spatial cluster
mean No cell(3*FISH green)/clust): mean number of nuclei with three FISH-green signals per spatial cluster
stnd No cell (3*FISH green)/clust): standard deviation of number of nuclei with three FISH-green signals per spatial cluster
mean No cell(4*FISH green)/clust): mean number of nuclei with four FISH-green signals per spatial cluster
stnd No cell (4*FISH green)/clust): standard deviation of number of nuclei with four FISH-green signals per spatial cluster
mean No cell(5*FISH green)/clust): mean number of nuclei with five FISH-green signals per spatial cluster
stnd No cell (5*FISH green)/clust): standard deviation of number of nuclei with five FISH-green signals per spatial cluster
mean No cell(6*FISH green)/clust): mean number of nuclei with six FISH-green signals per spatial cluster
stnd No cell (6*FISH green)/clust): standard deviation of number of nuclei with six FISH-green signals per spatial cluster
mean No cell(7*FISH green)/clust): mean number of nuclei with seven FISH-green signals per spatial cluster
stnd No cell (7*FISH green)/clust): standard deviation of number of nuclei with seven FISH-green signals per spatial cluster
mean No cell(8*FISH green)/clust): mean number of nuclei with eight FISH-green signals per spatial cluster
stnd No cell (8*FISH green)/clust): standard deviation of number of nuclei with eight FISH-green signals per spatial cluster
mean dist (1*FISH green): mean distance between FISH-green signals in spatial clusters with one FISH-green signal per nucleus
stnd dist (1*FISH green): standard deviation of distance between FISH-green signals in spatial clusters with two FISH-green
signals per nucleus
mean dist (2*FISH green): mean distance between FISH-green signals in spatial clusters with two FISH-green signals per nucleus
stnd dist (2*FISH green): standard deviation of distance between FISH-green signals in spatial clusters with two FISH-green
signal per nucleus
mean dist (3*FISH green): mean distance between FISH-green signals in spatial clusters with three FISH-green signals per nucleus
stnd dist (3*FISH green): standard deviation of distance between FISH-green signals in spatial clusters with three FISH-green
signal per nucleus
mean dist (4*FISH green): mean distance between FISH-green signals in spatial clusters with four FISH-green signals per nucleus
stnd dist (4*FISH green): standard deviation of distance between FISH-green signals in spatial clusters with four FISH-green
signal per nucleus
mean dist (5*FISH green): mean distance between FISH-green signals in spatial clusters with four FISH-green signals per nucleus
stnd dist (5*FISH green): standard deviation of distance between FISH-green signals in spatial clusters with four FISH-green
signal per nucleus
mean dist (6*FISH green): mean distance between FISH-green signals in spatial clusters with six FISH-green signals per nucleus
stnd dist (6*FISH green): standard deviation of distance between FISH-green signals in spatial clusters with six FISH-green
signal per nucleus
mean dist (7*FISH green): mean distance between FISH-green signals in spatial clusters with seven FISH-green signals per nucleus
stnd dist (7*FISH green): standard deviation of distance between FISH-green signals in spatial clusters with seven FISH-green
signal per nucleus
mean dist (8*FISH green): mean distance between FISH-green signals in spatial clusters with eight FISH-green signals per nucleus
stnd dist (8*FISH green): standard deviation of distance between FISH-green signals in spatial clusters with eight FISH-green
signal per nucleus
% single cells (6*FISH green/cell): percent of spatial isolated nuclei with six FISH-green signals
% single cells (7*FISH green/cell): percent of spatial isolated nuclei with seven FISH-green signals
% single cells (8*FISH green/cell): percent of spatial isolated nuclei with eight FISH-green signals.

The syntactic structure measurement program for nuclei, membrane or vessels will provide you with the following results:

Measurement data

number vertices: mean number of vertices (nodes) per image
star Delaunay: mean number of neighboring vertices (nodes) according to Delaunay tessellation
stnd dev star Delaunay: standard deviation of mean number of neighboring vertices (nodes) according to Delaunay tessellation
star mst: mean number of neighboring vertices (nodes) computed by minimum (spatial) spanning tree
stnd dev star mst: standard deviation of mean number of neighboring vertices (nodes) computed by minimum (spatial) spanning tree
mst distance nucleus: absolute value of mean of distance between neighboring vertices of the mst tree
stnd dev mst distance nucleus: standard deviation of mean of distance between neighboring vertices of the mst tree
mean Voronoi edge: mean length of Voronoi edges
stnd dev Voronoi edge: Standard deviation of mean of Voronoi edges
mean stain: mean of “entropy of stain” according to formula: e(dist, stain) = S{(dij)2+(dsij)2/[mean(dij)+dsij]2};
ij=neighboring vertices according to (“staining”-attributed) mst;
stnd dev mean stain: standard deviation of mean of mst entropy distance+stain;
mean Voronoi area: mean of “entropy of Voronoi area” according to formula: e(dist,area) = S{(dij)2+(daij)2/[mean(dij)+daij]2};
ij=neighboring vertices according to (“area”-attributed) mst;
stnd dev mean area: standard deviation of mean of mst entropy distance+area;
area: number of single (nucleus (vessel): number of singular (not to “area-attributed” cluster belonging nodes) (nuclei or vessels)
area: number cluster: mean number of clusters per image computed by area-attributed mst;
area: vertices/cluster: mean number of nodes per cluster of area-attributed mst cluster;
area: cluster diameter: mean cluster diameter of area-attributed mst cluster;
stain: number of single (nucleus (vessel): number of singular (not to “stain-attributed” cluster belonging nodes) (nuclei or vessels)
stain: number cluster: mean number of clusters per image computed by stain-attributed mst;
stain: vertices/cluster: mean number of nodes per cluster of stain-attributed mst cluster;
stain: cluster diameter: mean cluster diameter of stain-attributed mst cluster;
distance: number of single (nucleus (vessel): number of singular (not to “non-attributed” cluster belonging nodes) (nuclei or vessels)
distance: number cluster: mean number of clusters per image computed by non-attributed mst;
distance: vertices/cluster: mean number of nodes per cluster of non-attributed mst cluster
distance: cluster diameter: mean cluster diameter of non-attributed mst cluster
entropy stain: number of single (nucleus (vessel): number of singular (not to “entropy -stain-attributed” cluster belonging
nodes) (nuclei or vessels)
entropy stain: number cluster: mean number of clusters per image computed by entropy -stain-attributed mst;
entropy stain: vertices/cluster: mean number of nodes per cluster of entropy -stain-attributed mst cluster
entropy stain: cluster diameter: mean cluster diameter of entropy -stain-attributed mst cluster
entropy area: number of single (nucleus or vessel): number of singular (not to “entropy-area-attributed” cluster belonging
nodes), (nuclei or vessels)
entropy area: number cluster: mean number of clusters per image computed by entropy-area-attributed mst;
entropy area: vertices/cluster: mean number of nodes per cluster of entropy-area-attributed mst cluster
entropy area: cluster diameter: mean cluster diameter of entropy -area-attributed mst cluster
total entr: number of single (nucleus (vessel): number of singular (not to “entropy-attributed” cluster belonging nodes)
(nuclei or vessels)
total entr: number cluster: mean number of clusters per image computed by entropy-attributed mst (stain+area)
total entr: vertices/cluster: mean number of nodes per cluster of entropy-attributed mst cluster
total entr: cluster diameter: mean cluster diameter of entropy-attributed mst cluster.

The syntactic structure measurement program for comet FISH will provide you with the following results:

Measurement data

n-star fish 1 nc: mean number of neighbouring FISH signals (probe 1) in MST in the nucleus
dist fish 1 nc: mean variation of distance of MST FISH signals (probe 1) in the nucleus
area fish 1 nc: mean variation of area of MST FISH signals (probe 1) in the nucleus
iod fish 1 nc: mean variation of integrated optical density (IOD) of MST FISH signals (probe 1) in the nucleus
range iod fish 1 nc: mean variation of IOD range of MST FISH signals (probe 1) in the nucleus
entropy fish 1 nc: mean variation of entropy of MST FISH signals (probe 1) in the nucleus
no cluster fish 1 nc: number of FISH clusters (probe 1) in the nucleus
rad cluster fish 1 nc: mean radius of FISH clusters (probe 1) in the nucleus
no single fish 1 nc: mean No of non-clustered (single) FISH signals (probe 1) in the nucleus
n-star fish 1 tl: mean number of neighbouring FISH signals (probe 1) in MST in the tail
dist fish 1 tl: mean variation of distance of MST FISH signals (probe 1) in the tail
area fish 1 tl: mean variation of area of MST FISH signals (probe 1) in the tail
iod fish 1 nc: mean variation of integrated optical density (IOD) of MST FISH signals (probe 1) in the nucleus
range iod fish 1 tl: mean variation of IOD range of MST FISH signals (probe 1) in the tail
entropy fish 1 tl: mean variation of entropy of MST FISH signals (probe 1) in the tail
no cluster fish 1 tl: number of FISH clusters (probe 1) in the tail
rad cluster fish 1 tl: mean radius of FISH clusters (probe 1) in the tail
no single fish 1 tl: mean No of non-clustered (single) FISH signals (probe 1) in the tail
n-star fish 2 nc: mean number of neighbouring FISH signals (probe 2) in MST in the nucleus
dist fish 2 nc: mean variation of distance of MST FISH signals (probe 2) in the nucleus
area fish 2 nc: mean variation of area of MST FISH signals (probe 2) in the nucleus
iod fish 2 nc: mean variation of integrated optical density (IOD) of MST FISH signals (probe 2) in the nucleus
range iod fish 2 nc: mean variation of IOD range of MST FISH signals (probe 2) in the nucleus
entropy fish 2 nc: mean variation of entropy of MST FISH signals (probe 2) in the nucleus
no cluster fish 2 nc: number of FISH clusters (probe 2) in the nucleus
rad cluster fish 2 nc: mean radius of FISH clusters (probe 2) in the nucleus
no single fish 2 nc: mean No of non-clustered (single) FISH signals (probe 2) in the nucleus
n-star fish 2 tl: mean number of neighbouring FISH signals (probe 2) in MST in the tail
dist fish 2 tl: mean variation of distance of MST FISH signals (probe 2) in the tail
area fish 2 tl: mean variation of area of MST FISH signals (probe 2) in the tail
iod fish 2 nc: mean variation of integrated optical density (IOD) of MST FISH signals (probe 2) in the nucleus
range iod fish 2 tl: mean variation of IOD range of MST FISH signals (probe 2) in the tail
entropy fish 2 tl: mean variation of entropy of MST FISH signals (probe 2) in the tail
no cluster fish 2 tl: number of FISH clusters (probe 2) in the tail
rad cluster fish 2 tl: mean radius of FISH clusters (probe 2) in the tail
no single fish 2 tl: mean No of non-clustered (single) FISH signals (probe 2) in the tail.