Method and system for assessment of biomarkers by measurement of response to stimulus
First Claim
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1. A method for assessing at least one biomarker in a region of interest of a patient and a response of the at least one biomarker to an applied stimulus, the method comprising:
- (a) obtaining at least one pre-stimulus 3D image data set in the region of interest before the applied stimulus is applied to the at least one biomarker;
(b) applying the stimulus to the at least one biomarker, wherein the applied stimulus is an applied energy, an externally applied force, or a treatment modality;
(c) obtaining at least one post-stimulus 3D image data set in the region of interest after the applied stimulus is applied to the at least one biomarker; and
(d) extracting biomarker measurements from the at least one pre-stimulus 3D image data set and the at least one post-stimulus 3D image data set.
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Abstract
In a human or animal organ or other region of interest, specific objects, such as liver metastases and brain lesions, serve as indicators, or biomarkers, of disease. In a three-dimensional image of the organ, the biomarkers are identified and quantified both before and after a stimulus is applied, and their reaction to the stimulus is observed. Statistical segmentation techniques are used to identify the biomarker in a first image and to carry the identification over to the remaining images.
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Citations
34 Claims
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1. A method for assessing at least one biomarker in a region of interest of a patient and a response of the at least one biomarker to an applied stimulus, the method comprising:
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(a) obtaining at least one pre-stimulus 3D image data set in the region of interest before the applied stimulus is applied to the at least one biomarker;
(b) applying the stimulus to the at least one biomarker, wherein the applied stimulus is an applied energy, an externally applied force, or a treatment modality;
(c) obtaining at least one post-stimulus 3D image data set in the region of interest after the applied stimulus is applied to the at least one biomarker; and
(d) extracting biomarker measurements from the at least one pre-stimulus 3D image data set and the at least one post-stimulus 3D image data set. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17)
tumor surface area;
tumor compactness;
tumor surface curvature;
tumor surface roughness;
necrotic core volume;
necrotic core compactness;
necrotic core shape;
viable periphery volume;
volume of tumor vasculature;
change in tumor vasculature over time;
tumor shape;
morphological surface characteristics;
lesion characteristics;
tumor characteristics;
tumor peripheral characteristics;
tumor core characteristics;
bone metastases characteristics;
ascites characteristics;
pleural fluid characteristics;
vessel structure characteristics;
neovasculature characteristics;
polyp characteristics;
nodule characteristics;
angiogenisis characteristics;
tumor length;
tumor width; and
tumor 3D volume.
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12. The method of claim 1, wherein the at least one biomarker comprises a biomarker related to joint disease.
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13. The method of claim 12, wherein the biomarker related to joint disease is selected from the group consisting of:
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shape of a subchondral bone plate;
layers of cartilage and their relative size;
signal intensity distribution within the cartilage layers;
contact area between articulating cartilage surfaces;
surface topology of cartilage shape;
intensity of bone marrow edema;
separation distances between bones;
meniscus shape;
meniscus surface area;
meniscus contact area with cartilage;
cartilage structural characteristics;
cartilage surface characteristics;
meniscus structural characteristics;
meniscus surface characteristics;
pannus structural characteristics;
joint fluid characteristics;
osteophyte characteristics;
bone characteristics;
lytic lesion characteristics;
prosthesis contact characteristics;
prosthesis wear;
joint spacing characteristics;
tibia medial cartilage volume;
tibia lateral cartilage volume;
femur cartilage volume;
patella cartilage volume;
tibia medial cartilage curvature;
tibia lateral cartilage curvature;
femur cartilage curvature;
patella cartilage curvature;
cartilage bending energy;
subchondral bone plate curvature;
subchondral bone plate bending energy;
meniscus volume;
osteophyte volume;
cartilage T2 lesion volumes;
bone marrow edema volume and number;
synovial fluid volume;
synovial thickening;
subchondrial bone cyst volume and number;
kinematic tibial translation;
kinematic tibial rotation;
kinematic tibial valcus;
distance between vertebral bodies;
degree of subsidence of cage;
degree of lordosis by angle measurement;
degree of off-set between vertebral bodies;
femoral bone characteristics; and
patella characteristics.
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14. The method of claim 1, wherein the at least one biomarker comprises a biomarker related to neurological disease.
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15. The method of claim 14, wherein the biomarker related to neurological disease is selected from the group consisting of:
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a shape, topology, and morphology of brain lesions;
shape, topology, and morphology of brain plaques;
shape, topology, and morphology of brain ischemia;
shape, topology, and morphology of brain tumors;
spatial frequency distribution of sulci and gyri;
compactness of gray matter and white matter;
whole brain characteristics;
gray matter characteristics;
white matter characteristics;
cerebral spinal fluid characteristics;
hippocampus characteristics;
brain sub-structure characteristics;
a ratio of cerebral spinal fluid volume to gray mater and white matter volume; and
a number and volume of brain lesions.
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16. The method of claim 1, wherein the at least one biomarker comprises a biomarker related to disease and toxicity in an organ.
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17. The method of claim 16, wherein the biomarker related to disease and toxicity is selected from the group consisting of:
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organ volume;
organ surface;
organ compactness;
organ shape;
organ surface roughness; and
fat volume and shape.
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18. A system for assessing at least one biomarker in a region of interest of a patent and a response of the at least one biomarker to an applied stimulus, the system comprising:
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a stimulus applying device for applying the stimulus to the at least one biomarker, wherein the applied stimulus is an applied energy, an externally applied force, or a treatment modality;
an input device for receiving an input of (a) at least one pre-stimulus 3D image data set in the region of interest before the stimulus is applied to the at least one biomarker and (b) at least one post-stimulus 3D image data set in the region of interest after the stimulus is applied to the at least one biomarker; and
a computing device, in communication with the input device, for extracting biomarker measurements from the at least one pre-stimulus 3D image data set and the at least one post-stimulus 3D image data set. - View Dependent Claims (19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34)
tumor surface area;
tumor compactness;
tumor surface curvature;
tumor surface roughness;
necrotic core volume;
necrotic core compactness;
necrotic core shape;
viable periphery volume;
volume of tumor vasculature;
change in tumor vasculature over time;
tumor shape;
morphological surface characteristics;
lesion characteristics;
tumor characteristics;
tumor peripheral characteristics;
tumor core characteristics;
bone metastases characteristics;
ascites characteristics;
pleural fluid characteristics;
vessel structure characteristics;
neovasculature characteristics;
polyp characteristics;
nodule characteristics;
angiogenisis characteristics;
tumor length;
tumor width; and
tumor 3D volume.
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29. The system of claim 18, wherein the at least one biomarker comprises a biomarker related to joint disease.
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30. The system of claim 29, wherein the biomarker related to joint disease is selected from the group consisting of:
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shape of a subchondral bone plate;
layers of cartilage and their relative size;
signal intensity distribution within the cartilage layers;
contact area between articulating cartilage surfaces;
surface topology of cartilage shape;
intensity of bone marrow edema;
separation distances between bones;
meniscus shape;
meniscus surface area;
meniscus contact area with cartilage;
cartilage structural characteristics;
cartilage surface characteristics;
meniscus structural characteristics;
meniscus surface characteristics;
pannus structural characteristics;
joint fluid characteristics;
osteophyte characteristics;
bone characteristics;
lytic lesion characteristics;
prosthesis contact characteristics;
prosthesis wear;
joint spacing characteristics;
tibia medial cartilage volume;
tibia lateral cartilage volume;
femur cartilage volume;
patella cartilage volume;
tibia medial cartilage curvature;
tibia lateral cartilage curvature;
femur cartilage curvature;
patella cartilage curvature;
cartilage bending energy;
subchondral bone plate curvature;
subchondral bone plate bending energy;
meniscus volume;
osteophyte volume;
cartilage T2 lesion volumes;
bone marrow edema volume and number;
synovial fluid volume;
synovial thickening;
subchondrial bone cyst volume and number;
kinematic tibial translation;
kinematic tibial rotation;
kinematic tibial valcus;
distance between vertebral bodies;
degree of subsidence of cage;
degree of lordosis by angle measurement;
degree of off-set between vertebral bodies;
femoral bone characteristics; and
patella characteristics.
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31. The system of claim 18, wherein the at least one biomarker comprises a biomarker related to neurological disease.
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32. The system of claim 31, wherein the biomarker related to neurological disease is selected from the group consisting of:
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a shape, topology, and morphology of brain lesions;
shape, topology, and morphology of brain plaques;
shape, topology, and morphology of brain ischemia;
shape, topology, and morphology of brain tumors;
spatial frequency distribution of sulci and gyri;
compactness of gray matter and white matter;
whole brain characteristics;
gray matter characteristics;
white matter characteristics;
cerebral spinal fluid characteristics;
hippocampus characteristics;
brain sub-structure characteristics;
a ratio of cerebral spinal fluid volume to gray mater and white matter volume; and
a number and volume of brain lesions.
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33. The system of claim 18, wherein the at least one biomarker comprises a biomarker related to disease and toxicity in an organ.
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34. The system of claim 33, wherein the biomarker related to disease and toxicity is selected from the group consisting of:
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organ volume;
organ surface;
organ compactness;
organ shape;
organ surface roughness; and
fat volume and shape.
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Specification