METHODS, SYSTEMS AND COMPUTER PROGRAM PRODUCTS FOR ANALYZING THREE DIMENSIONAL DATA SETS OBTAINED FROM A SAMPLE

• US 20070025642A1
• Filed: 07/31/2006
• Published: 02/01/2007
• Est. Priority Date: 08/01/2005
• Status: Active Grant

• Current Assignee: Bioptigen, Inc. (Danaher Corporation)
• Original Assignee: Bioptigen, Inc. (Danaher Corporation)
• Inventors: Brown, William, Izatt, Joseph, Buckland, Eric
• Granted Patent: US 7,869,663 B2
• Time in Patent Office: Days
• US Class Current: 382/294
• CPC Class Codes: A61B 3/102 for optical coherence tomography [OCT]
• CPC Class Codes: A61B 3/1225 using coherent radiation
• CPC Class Codes: G01N 21/4795 spatially resolved investigating of object in scattering medium in vivo A61B
• CPC Class Codes: G06T 2207/30004 Biomedical image processing
• CPC Class Codes: G06T 7/33 using feature-based methods

Abstract

Methods of analyzing three dimensional data sets obtained from a sample over time are provided. A first three dimensional data set is obtained from the sample at a first time. A first volume intensity projection (VIP) image is created from the first three dimensional data set. One or more first landmarks are identified and registered in the first VIP image. A second three dimensional data set is obtained from the sample at a second time, different from the first time. A second VIP image is created from the second three dimensional data set. The one ore more first landmarks are identified and registered in the second VIP image. The first and second VIP images are aligned based on the registered one or more first landmarks in the first and second VIP images. Related systems and computer program products are also provided.

Claims

1. A method of analyzing three dimensional data sets obtained from a sample over time, comprising:

obtaining a first three dimensional data set from the sample at a first time;

creating a first volume intensity projection (VIP) image from the first three dimensional data set;

identifying and registering at least one first landmark in the first VIP image;

obtaining a second three dimensional data set from the sample at a second time, different from the first time;

creating a second VIP image from the second three dimensional data set;

identifying and registering the at least one first landmark in the second VIP image; and

aligning the first and second VIP images based on the registered at least one first landmark in the first and second VIP images.

2. The method of claim 1:

wherein identifying and registering at least one first landmark in the first VIP image is followed by registering at least one subject area in the first three dimensional data set; and

wherein aligning further comprises aligning the first and second VIP images based on the registered at least one first landmark to locate the registered subject area of the first three dimensional data set in the second three dimensional data set so as to allow comparison of the registered subject area in the first and second three dimensional data sets at the respective first and the second times.

3. The method of claim 2, further comprising:

measuring an attribute of the registered subject area of the first VIP image;

measuring an attribute of the located subject area of the second VIP image; and

comparing the measured attributes of the registered and located subject areas so as to allow comparison of the subject areas at the first and second times.

4. The method of claim 1, wherein the first and second three dimensional data sets are optical coherence tomography (OCT) data sets.

5. The method of claim 1, further comprising:

rotating the second three dimensional data set to align an axis of the second three dimensional data set with an axis of the first three dimensional data set to obtain a rotated three dimensional data set; and

creating a rotated VIP image based on the rotated three dimensional data set.

6. The method of claim 5, wherein identifying and registering at least one first landmark in the first VIP image is followed by registering at least one subject area in the first three dimensional data set, the method further comprising:

identifying and registering the at least one first landmark on the rotated three dimensional data set; and

aligning the first and rotated VIP images based on the registered at least one first landmark in the first and rotated VIP images, wherein aligning includes aligning the first and rotated VIP images based on the registered at least one first landmark to locate the registered subject area in the first three dimensional data set in the rotated three dimensional data set so as to allow comparison of the registered subject area and the located subject area of the first and rotated three dimensional data sets, respectively.

7. The method of claim 6, further comprising:

measuring an attribute of the registered subject area of the first three dimensional data set;

measuring an attribute of the located subject area of the rotated three dimensional data set; and

comparing the measured attributes of the registered and located common subject areas so as to allow comparison of the subject areas in the first and rotated three dimensional data set.

8. A method for analyzing three dimensional data sets obtained from a sample, comprising:

obtaining a first three dimensional data set from the sample at a first time;

creating a first volume intensity projection (VIP) image from the first three dimensional data set;

obtaining a second three dimensional data set from the sample at a second time, different from the first time;

rotating the second three dimensional data set to align an axis of the second three dimensional data set with an axis of the first three dimensional data set to obtain a rotated three dimensional data set; and

creating a rotated VIP image based on the rotated three dimensional data set.

9. The method of claim 8, further comprising:

identifying and registering at least one first landmark in the first VIP image;

registering at least one subject area in the first three dimensional data set;

identifying and registering the at least one first landmark on the rotated VIP image; and

aligning the first and rotated VIP images based on the registered at least one first landmark in the first and rotated VIP images, wherein aligning includes aligning the first and rotated VIP images based on the registered at least one first landmark to locate the registered subject area in the first three dimensional data set in the rotated three dimensional data set so as to allow comparison of the registered and located subject areas at the first and second times.

10. The method of claim 8, further comprising:

measuring an attribute of the registered subject area of the first three dimensional data set;

measuring an attribute of the located subject area of the rotated three dimensional data set; and

comparing the measured attributes of the registered and located subject areas so as to allow comparison of the subject areas in the first and rotated three dimensional data set.

11. The method of claim 8, wherein the first, second and rotated three dimensional data sets are optical coherence tomography (OCT) data sets.

12. A computer program product for analyzing three dimensional data sets obtained from a sample, the computer program product comprising computer program code embodied in a computer readable medium, the computer program code comprising program code configured to carry out the method of claim 8.

13. A computer system configured to carry out the method of claim 8.

14. A method of analyzing data sets obtained from a sample over time, comprising:

identifying and registering at least one landmark in first and second volume intensity projection (VIP) images created from first and second three dimensional data sets, respectively; and

aligning the first and second VIP images based on the registered at least one first landmark to locate a common subject area in the first and second three dimensional data sets so as to allow comparison of the common subject area in the first and second three dimensional data sets at the first and the second times, respectively.

15. A computer program product of analyzing data sets obtained from a sample over time, the computer program product comprising computer program code embodied in a computer readable medium, the computer program code comprising program code configured to carry out the method of claim 14.

16. A computer system configured to carry out the method of claim 14.

17. A system for analyzing three dimensional data sets obtained from a sample over time, comprising:

a data set acquisition module configured to obtain a first three dimensional data set from the sample at a first time and a second three dimensional data set from the sample at a second time, different from the first time;

a volume intensity projection (VIP) module configured to create a first volume intensity projection (VIP) image from the first three dimensional data set and a second VIP image from the second three dimensional data set;

a registration module configured to identify and register at least one first landmark in the first VIP image and the at least one first landmark in the second VIP image; and

an alignment module configured to align the first and second VIP images based on the registered at least one first landmark in the first and second VIP images.

18. The system of claim 17:

wherein the registration module is further configured to register at least one subject area in the first three dimensional data set; and

wherein the alignment module is further configured to align the first and second VIP images based on the registered at least one first landmark to locate the registered subject area of the first three dimensional data set in the second three dimensional data set so as to allow comparison of the registered subject area in the first and second VIP at the respective first and the second times.

19. The system of claim 18, further comprising a comparison module configured to:

measure an attribute of the registered subject area of the first three dimensional data set;

measure an attribute of the located subject area of the second three dimensional data set; and

compare the measured attributes of the registered and located subject areas so as to allow comparison of the subject areas at the first and second times.

20. The system of claim 17, wherein the first and second three dimensional data sets are optical coherence tomography (OCT) data sets.

21. The system of claim 17, further comprising:

a rotation module configured to rotate the second three dimensional data set to align an axis of the second three dimensional data set with an axis of the first three dimensional data set to obtain a rotated three dimensional data set, wherein the VIP module is further configured to create a rotated VIP image based on the rotated three dimensional data set.

22. The system of claim 21:

wherein the registration module is further configured to register at least one subject area in the first three dimensional data set and identify and register the at least one first landmark on the rotated VIP image; and

wherein the alignment module is further configured to align the first and rotated VIP images based on the registered at least one first landmark in the first and rotated VIP image and align the first and rotated VIP images based on the registered at least one first landmark to locate the registered subject area in the first three dimensional data set in the rotated three dimensional data set so as to allow comparison of the registered subject area and the located subject area of the first and rotated three dimensional data sets, respectively.

23. The system of claim 22, further comprising a comparison module configured to:

measure an attribute of the registered subject area of the first three dimensional data set;

measure an attribute of the located subject area of the rotated three dimensional data set; and

compare the measured attributes of the registered and located subject areas so as to allow comparison of the subject areas in the first and rotated three dimensional data sets.

24. A computer program product for analyzing three dimensional data sets obtained from a sample over time, the computer program product comprising:

computer readable storage medium having computer readable program code embodied in said medium, the computer readable program code comprising;

computer readable program code configured to obtain a first three dimensional data set from the sample at a first time;

computer readable program code configured to create a first volume intensity projection (VIP) image from the first three dimensional data set;

computer readable program code configured to identify and register at least one first landmark in the first VIP image;

computer readable program code configured to obtain a second three dimensional data set from the sample at a second time, different from the first time;

computer readable program code configured to create a second VIP image from the second three dimensional data set;

computer readable program code configured to identify and register the at least one first landmark in the second VIP image; and

computer readable program code configured align the first and second VIP images based on the registered at least one first landmark in the first and second VIP images.

25. The computer program product of claim 24, further comprising computer readable program code configured to register at least one subject area in the first three dimensional data set, wherein the computer readable program code configured to align further comprises aligning the first and second VIP images based on the registered at least one first landmark to locate the registered subject area of the first three dimensional data set in the second three dimensional data set so as to allow comparison of the registered subject area in the first and second three dimensional data sets at the respective first and the second times.

26. The computer program product of claim 25, further comprising:

computer readable program code configured to measure an attribute of the registered subject area of the first three dimensional data set;

computer readable program code configured to measure an attribute of the located subject area of the second three dimensional data set; and

computer readable program code configured to compare the measured attributes of the registered and located subject areas so as to allow comparison of the subject areas at the first and second times.

27. The computer program product of claim 24, wherein the first and second three dimensional data sets are optical coherence tomography (OCT) data sets.

28. The computer program product of claim 24, further comprising:

computer readable program code configured to rotate the second three dimensional data set to align an axis of the second three dimensional data set with an axis of the first three dimensional data set to obtain a rotated three dimensional data set; and

computer readable program code configured to create a rotated VIP image based on the rotated three dimensional data set.

29. The computer program product of claim 28, further comprising:

computer readable program code configured to register at least one subject area in the first three dimensional data set,

computer readable program code configured to identify and register the at least one first landmark on the rotated VIP image; and

computer readable program code configured to align the first and rotated VIP images based on the registered at least one first landmark in the first and rotated VIP images and align the first and rotated VIP images based on the registered at least one first landmark to locate the registered subject area in the first three dimensional data set in the rotated three dimensional data set so as to allow comparison of the registered subject area and the located subject area of the first and rotated three dimensional data sets, respectively.

30. The computer program product of claim 29, further comprising:

computer readable program code configured to measure an attribute of the registered subject area of the first three dimensional data set;

computer readable program code configured to measure an attribute of the located subject area of the rotated three dimensional data set; and

computer readable program code configured to compare the measured attributes of the registered and located subject areas so as to allow comparison of the subject areas in the first and rotated three dimensional data sets.

31. A method for analyzing three dimensional data sets obtained from a sample over time, comprising:

obtaining a first three dimensional data set from the sample at a first time;

creating a first volume intensity projection (VIP) image from the first three dimensional data set;

identifying and registering at least one first landmark on the first VIP image;

registering a subject area in the first three dimensional data set on the first VIP image;

obtaining a second three dimensional data set at a second time, different from the first time;

creating a second VIP image from the second three dimensional data set;

identifying and registering the at least one first landmark on the second VIP image;

deriving alignment between the first at least one landmark registered on first VIP and second VIP images; and

locating the subject area registered in the first three dimensional data set in the second three dimensional data set based on registration of the at least one landmark derived from the first three dimensional data set and alignment between the first and second VIP images.

32. The method of claim 31 further comprising:

measuring an attribute of the registered subject area in the first three dimensional data set obtained at the first time;

measuring an attribute of the located subject area in the second data set obtained at the second time; and

comparing the attributes of the registered and located subject areas so as to allow comparison of the subject areas at the first and second times.

33. The method of claim 32, further comprising:

rotating the second three dimensional data set to align an axis of the second three dimensional data set with an axis of the first three dimensional data set to provide a rotated three dimensional data set;

creating a rotated VIP image from the rotated three dimensional data set;

identifying and registering the at least one landmark on the rotated VIP image;

deriving alignment between the at least one landmark on the first and rotated VIP images; and

locating the subject area registered in the first three dimensional data set in the rotated three dimensional data set based on registration of the at least one landmark derived from the first three dimensional data set and alignment between the first and rotated VIP images.

34. The method of claim 33 further comprising:

measuring an attribute of the registered subject area in the first three dimensional data set;

measuring an attribute of the located subject area in the rotated three dimensional data set; and

comparing the attributes of the registered and located subject areas in the first and rotated data sets.

35. The method of claim 31 further comprising:

rotating the first three dimensional data set about an axis;

interpolating the rotated first three dimensional data set to a regular grid;

creating a rotated VIP image from the rotated first three dimensional data set;

identifying and registering at least one second landmark on rotated VIP image;

registering a second subject area in the rotated three dimensional data set to landmark on rotated VIP image;

obtaining a third three dimensional data set at a third time, different from the first and second times;

rotating and aligning orientation of the third three dimensional data set to the first rotated three dimensional data set;

creating a third VIP image from the rotated and aligned third three dimensional data set;

identifying and registering the at least one second landmark on the third VIP image;

deriving alignment between the second at least one landmark registered on rotated VIP and third VIP images; and

locating the subject area registered in the rotated three dimensional data set in the third three dimensional data set based on registration of the at least one second landmark derived from the rotated three dimensional data set and alignment between the rotated and third VIP images.

36. The method of claim 35 further comprising:

measuring an attribute of the registered subject area in the rotated three dimensional data set;

measuring an attribute of the located subject area in the third three dimensional data set; and

comparing the attributes of the registered and located subject areas of the rotated and third data sets, respectively.

37. The method of claim 31, wherein the first three dimensional data set is rotated about an axis to provide a rotated first three dimensional data set, wherein the first VIP image is created from the rotated first three dimensional data set, wherein the second three dimensional data set is rotated about an axis aligned with the rotated first three dimensional data set to provide a rotated second three dimensional data set and wherein the second VIP image is created from the rotated second three dimensional data set.

38. The method of claim 37, further comprising:

measuring an attribute of the registered subject area in the first rotated three dimensional data set;

measuring an attribute of the located subject area in the second three dimensional data set; and

comparing the attributes of the registered and located subject areas of the rotated first and second data sets, respectively.