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Electronic Automated Measurement User System (EAMUS™)
Syntactic Structure Analysis
The syntactic structure analysis program is an appropriate program to measure the spatial distribution and interobject 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 FISHred signals
 stnd star red: standard deviation of mean number of FISHred stars
 mean distance mst red: mean distance between MST FISHred neighbors
 stnd distance mst red: standard deviation of mean distance MST FISHred signals
 mean dif no FISH red (mst): mean variation of distance between MST FISHred signals
 stnd dif FISH red: standard deviation of mean variation of distance between MST FISHred signals
 mean E(MST) FISH distance red: mean MST entropy (distance only) of FISHred signals
 stnd E(MST)FISH distance red: standard deviation of MST entropy (distance only) of FISHred signals
 mean E(MST) No FISH red: mean MST entropy (FISHred signals per nucleus)
 stnd E(MST) No FISH red: standard deviation of MST entropy (FISHred signals per nucleus)
 mean total E(MST) FISH red: mean total MST entropy of FISHred signals;
 stnd total E(MST) FISH red: standard deviation of total MST entropy of FISHred signals
 mean No cell(1*FISH red)/clust): mean number of nuclei with one FISHred signal per spatial cluster
 stnd No cell (1*FISH red)/clust): standard deviation of number of nuclei with one FISHred signal per spatial cluster
 mean No cell(2*FISH red)/clust): mean number of nuclei with two FISHred signals per spatial cluster
 stnd No cell (2*FISH red)/clust): standard deviation of number of nuclei with two FISHred signals per spatial cluster
 mean No cell(3*FISH red)/clust): mean number of nuclei with three FISHred signals per spatial cluster
 stnd No cell (3*FISH red)/clust): standard deviation of number of nuclei with three FISHred signals per spatial cluster
 mean No cell(4*FISH red)/clust): mean number of nuclei with four FISHred signals per spatial cluster
 stnd No cell (4*FISH red)/clust): standard deviation of number of nuclei with four FISHred signals per spatial cluster
 mean No cell(5*FISH red)/clust): mean number of nuclei with five FISHred signals per spatial cluster
 stnd No cell (5*FISH red)/clust): standard deviation of number of nuclei with five FISHred signals per spatial cluster
 mean No cell(6*FISH red)/clust): mean number of nuclei with six FISHred signals per spatial cluster
 stnd No cell (6*FISH red)/clust): standard deviation of number of nuclei with six FISHred signals per spatial cluster
 mean No cell(7*FISH red)/clust): mean number of nuclei with seven FISHred signals per spatial cluster
 stnd No cell (7*FISH red)/clust): standard deviation of number of nuclei with seven FISHred signals per spatial cluster
 mean No cell(8*FISH red)/clust): mean number of nuclei with eight FISHred signals per spatial cluster
 stnd No cell (8*FISH red)/clust): standard deviation of number of nuclei with eight FISHred signals per spatial cluster
 mean dist (1*FISH red): mean distance between FISHred signals in spatial clusters with one FISHred signal per nucleus
 stnd dist (1*FISH red): standard deviation of distance between FISHred signals in spatial clusters with two FISHred
signals per nucleus
 mean dist (2*FISH red): mean distance between FISHred signals in spatial clusters with two FISHred signals per nucleus
 stnd dist (2*FISH red): standard deviation of distance between FISHred signals in spatial clusters with two FISHred
signal per nucleus
 mean dist (3*FISH red): mean distance between FISHred signals in spatial clusters with three FISHred signals per nucleus
 stnd dist (3*FISH red): standard deviation of distance between FISHred signals in spatial clusters with three FISHred
signal per nucleus
 mean dist (4*FISH red): mean distance between FISHred signals in spatial clusters with four FISHred signals per nucleus
 stnd dist (4*FISH red): standard deviation of distance between FISHred signals in spatial clusters with four FISHred
signal per nucleus
 mean dist (5*FISH red): mean distance between FISHred signals in spatial clusters with four FISHred signals per nucleus
 stnd dist (5*FISH red): standard deviation of distance between FISHred signals in spatial clusters with four FISHred
signal per nucleus
 mean dist (6*FISH red): mean distance between FISHred signals in spatial clusters with six FISHred signals per nucleus
 stnd dist (6*FISH red): standard deviation of distance between FISHred signals in spatial clusters with six FISHred
signal per nucleus
 mean dist (7*FISH red): mean distance between FISHred signals in spatial clusters with seven FISHred signals per nucleus
 stnd dist (7*FISH red): standard deviation of distance between FISHred signals in spatial clusters with seven FISHred
signal per nucleus
 mean dist (8*FISH red): mean distance between FISHred signals in spatial clusters with eight FISHred signals per nucleus
 stnd dist (8*FISH red): standard deviation of distance between FISHred signals in spatial clusters with eight FISHred
signal per nucleus
 mean star green: mean number of stars (MST neighbors) of FISHgreen signals
 stnd star green: standard deviation of mean number of FISHgreen stars
 mean distance mst green: mean distance between MST FISHgreen neighbors
 stnd distance mst green: standard deviation of mean distance MST FISHgreen signals
 mean dif no FISH green (mst): mean variation of distance between MST FISHgreen signals
 stnd dif FISH green: standard deviation of mean variation of distance between MST FISHgreen signals
 mean E(MST) FISH distance green: mean MST entropy (distance only) of FISHgreen signals
 stnd E(MST)FISH distance green: standard deviation of MST entropy (distance only) of FISHgreen signals
 mean E(MST) No FISH green: mean MST entropy (FISHgreen signals per nucleus)
 stnd E(MST) No FISH green: standard deviation of MST entropy (FISHgreen signals per nucleus)
 mean total E(MST) FISH green: mean total MST entropy of FISHgreen signals
 stnd total E(MST) FISH green: standard deviation of total MST entropy of FISHgreen signals
 mean No cell(1*FISH green)/clust): mean number of nuclei with one FISHgreen signal per spatial cluster
 stnd No cell (1*FISH green)/clust): standard deviation of number of nuclei with one FISHgreen signal per spatial cluster
 mean No cell(2*FISH green)/clust): mean number of nuclei with two FISHgreen signals per spatial cluster
 stnd No cell (2*FISH green)/clust): standard deviation of number of nuclei with two FISHgreen signals per spatial cluster
 mean No cell(3*FISH green)/clust): mean number of nuclei with three FISHgreen signals per spatial cluster
 stnd No cell (3*FISH green)/clust): standard deviation of number of nuclei with three FISHgreen signals per spatial cluster
 mean No cell(4*FISH green)/clust): mean number of nuclei with four FISHgreen signals per spatial cluster
 stnd No cell (4*FISH green)/clust): standard deviation of number of nuclei with four FISHgreen signals per spatial cluster
 mean No cell(5*FISH green)/clust): mean number of nuclei with five FISHgreen signals per spatial cluster
 stnd No cell (5*FISH green)/clust): standard deviation of number of nuclei with five FISHgreen signals per spatial cluster
 mean No cell(6*FISH green)/clust): mean number of nuclei with six FISHgreen signals per spatial cluster
 stnd No cell (6*FISH green)/clust): standard deviation of number of nuclei with six FISHgreen signals per spatial cluster
 mean No cell(7*FISH green)/clust): mean number of nuclei with seven FISHgreen signals per spatial cluster
 stnd No cell (7*FISH green)/clust): standard deviation of number of nuclei with seven FISHgreen signals per spatial cluster
 mean No cell(8*FISH green)/clust): mean number of nuclei with eight FISHgreen signals per spatial cluster
 stnd No cell (8*FISH green)/clust): standard deviation of number of nuclei with eight FISHgreen signals per spatial cluster
 mean dist (1*FISH green): mean distance between FISHgreen signals in spatial clusters with one FISHgreen signal per nucleus
 stnd dist (1*FISH green): standard deviation of distance between FISHgreen signals in spatial clusters with two FISHgreen
signals per nucleus
 mean dist (2*FISH green): mean distance between FISHgreen signals in spatial clusters with two FISHgreen signals per nucleus
 stnd dist (2*FISH green): standard deviation of distance between FISHgreen signals in spatial clusters with two FISHgreen
signal per nucleus
 mean dist (3*FISH green): mean distance between FISHgreen signals in spatial clusters with three FISHgreen signals per nucleus
 stnd dist (3*FISH green): standard deviation of distance between FISHgreen signals in spatial clusters with three FISHgreen
signal per nucleus
 mean dist (4*FISH green): mean distance between FISHgreen signals in spatial clusters with four FISHgreen signals per nucleus
 stnd dist (4*FISH green): standard deviation of distance between FISHgreen signals in spatial clusters with four FISHgreen
signal per nucleus
 mean dist (5*FISH green): mean distance between FISHgreen signals in spatial clusters with four FISHgreen signals per nucleus
 stnd dist (5*FISH green): standard deviation of distance between FISHgreen signals in spatial clusters with four FISHgreen
signal per nucleus
 mean dist (6*FISH green): mean distance between FISHgreen signals in spatial clusters with six FISHgreen signals per nucleus
 stnd dist (6*FISH green): standard deviation of distance between FISHgreen signals in spatial clusters with six FISHgreen
signal per nucleus
 mean dist (7*FISH green): mean distance between FISHgreen signals in spatial clusters with seven FISHgreen signals per nucleus
 stnd dist (7*FISH green): standard deviation of distance between FISHgreen signals in spatial clusters with seven FISHgreen
signal per nucleus
 mean dist (8*FISH green): mean distance between FISHgreen signals in spatial clusters with eight FISHgreen signals per nucleus
 stnd dist (8*FISH green): standard deviation of distance between FISHgreen signals in spatial clusters with eight FISHgreen
signal per nucleus
 % single cells (6*FISH green/cell): percent of spatial isolated nuclei with six FISHgreen signals
 % single cells (7*FISH green/cell): percent of spatial isolated nuclei with seven FISHgreen signals
 % single cells (8*FISH green/cell): percent of spatial isolated nuclei with eight FISHgreen 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 “areaattributed” cluster belonging nodes) (nuclei or vessels)
 area: number cluster: mean number of clusters per image computed by areaattributed mst;
 area: vertices/cluster: mean number of nodes per cluster of areaattributed mst cluster;
 area: cluster diameter: mean cluster diameter of areaattributed mst cluster;
 stain: number of single (nucleus (vessel): number of singular (not to “stainattributed” cluster belonging nodes) (nuclei or vessels)
 stain: number cluster: mean number of clusters per image computed by stainattributed mst;
 stain: vertices/cluster: mean number of nodes per cluster of stainattributed mst cluster;
 stain: cluster diameter: mean cluster diameter of stainattributed mst cluster;
 distance: number of single (nucleus (vessel): number of singular (not to “nonattributed” cluster belonging nodes) (nuclei or vessels)
 distance: number cluster: mean number of clusters per image computed by nonattributed mst;
 distance: vertices/cluster: mean number of nodes per cluster of nonattributed mst cluster
 distance: cluster diameter: mean cluster diameter of nonattributed mst cluster
 entropy stain: number of single (nucleus (vessel): number of singular (not to “entropy stainattributed” cluster belonging
nodes) (nuclei or vessels)
 entropy stain: number cluster: mean number of clusters per image computed by entropy stainattributed mst;
 entropy stain: vertices/cluster: mean number of nodes per cluster of entropy stainattributed mst cluster
 entropy stain: cluster diameter: mean cluster diameter of entropy stainattributed mst cluster
 entropy area: number of single (nucleus or vessel): number of singular (not to “entropyareaattributed” cluster belonging
nodes), (nuclei or vessels)
 entropy area: number cluster: mean number of clusters per image computed by entropyareaattributed mst;
 entropy area: vertices/cluster: mean number of nodes per cluster of entropyareaattributed mst cluster
 entropy area: cluster diameter: mean cluster diameter of entropy areaattributed mst cluster
 total entr: number of single (nucleus (vessel): number of singular (not to “entropyattributed” cluster belonging nodes)
(nuclei or vessels)
 total entr: number cluster: mean number of clusters per image computed by entropyattributed mst (stain+area)
 total entr: vertices/cluster: mean number of nodes per cluster of entropyattributed mst cluster
 total entr: cluster diameter: mean cluster diameter of entropyattributed mst cluster.
The syntactic structure measurement program for comet FISH will provide you with the following results:
Measurement data
 nstar 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 nonclustered (single) FISH signals (probe 1) in the nucleus
 nstar 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 nonclustered (single) FISH signals (probe 1) in the tail
 nstar 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 nonclustered (single) FISH signals (probe 2) in the nucleus
 nstar 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 nonclustered (single) FISH signals (probe 2) in the tail.

