Method of compensating for offset distortion in rows of electrophoretic patterns

• US 4,720,786 A
• Filed: 04/21/1986
• Issued: 01/19/1988
• Est. Priority Date: 04/19/1985
• Status: Expired due to Term

• Current Assignee: Fuji Photo Film Co Limited (Fujifilm Holdings Corporation)
• Original Assignee: Fuji Photo Film Co Limited (Fujifilm Holdings Corporation)
• Inventors: Hara, Makoto
• Primary Examiner(s): Smith, Jerry
• Assistant Examiner(s): NOT, DEFINED
• Application Number:
  US06/854,381
• Time in Patent Office: 638 Days
• Field of Search: 364/413, 935/77, 935/78, 935/86, 935/87, 435/6, 435/808
• US Class Current: 204/461
• CPC Class Codes: G01N 27/44704 Details; Accessories
• CPC Class Codes: Y10S 250/909 Methods and apparatus ancillary to stimulable phosphor systems

Abstract

The base sequence of nucleic acids is determined by subjecting digital signals to signal processing, where the digital signals correspond to an autoradiograph of plural resolved rows which are formed by resolving a mixture of base-specific DNA fragments or base-specific RNA fragments labeled with a radioactive element in one-dimensional direction on a support medium.

The method involves detecting at least two bands in the lower part of each resolved row and numbering the bands consecutively from the lower end, obtaining correlation between the band'"'"'s number and a resolved distance thereof for each resolved row, and then determining the difference in the resolved distance between the resolved rows from the resulting correlation and making correction for the resolved position on each row by taking the difference as a locational deviation of the rows from each other.

Claims

1. A signal processing method for determining base sequence of nucleic acids by subjecting digital signals to signal processing, said digital signals corresponding to an autoradiograph of plural resolved rows which are formed by resolving a mixture of base-specific DNA fragments or base-specific RNA fragments labeled with a radioactive element in one-dimensional direction on a support medium, which comprises steps of:

(1) detecting at least two bands in the lower part of each resolved row and numbering the bands consecutively from the lower end;

(2) obtaining correlation between the the band'"'"'s number and a resolved distance thereof for each resolved row; and

(3) determining difference in the resolved distance between the resolved rows from the resulting correlation and making correction for resolved position on each row by taking said difference as location deviation of the rows from each other.

2. The signal processing method as claimed in claim 1, wherein said bands are detected by extracting digital signals along the resolving direction of each resolved row and then finding out positions where level of the extracted signal is maximum, in said step (1).

3. The signal processing method as claimed in claim 1, wherein said correlation between the band'"'"'s number and the resolved distance thereof is obtained as a regression line or a regression curve, in said step (2).

4. The signal processing method as claimed in claim 3, wherein said difference in the resolved distance between the resolved rows is determined as a difference in an intercept of the regression line or the regression curve, in said step (3).

5. The signal processing method as claimed in claim 1, wherein correction for the resolved distance is made on each resolved row by detecting inclination of at least one band to the resolving direction for each row and then determining a relative position of said band on other rows on the basis of the inclination thereof, prior to said step (1).

6. The signal processing method as claimed in claim 1, wherein the mixture of the base-specific DNA fragments consists of the four groups of:

(1) guanine-specific DNA fragments;

(2) adenine-specific DNA fragments;

(3) thymine-specific DNA fragments; and

(4) cytosine-specific DNA fragments;

and the resolved rows consist of four rows formed by resolving each of said four groups of the base-specific DNA fragments on the support medium.

7. The signal processing method as claimed in claim 1, wherein said digital signals corresponding to the autoradiograph are obtained by placing the support medium and a stimulable phosphor sheet comprising a stimulable phosphor together in layers to record the autoradiograph of the plural resolved rows on the phosphor sheet as an energy-stored image, irradiating said phosphor sheet with stimulating rays and photoelectrically detecting the autoradiograph as stimulated emission.

8. The signal processing method as claimed in claim 1, wherein said digital signals corresponding to the autoradiograph are obtained by placing the support medium and a radiosensitive material together in layers to record the autoradiograph of the plural resolved rows on the radiosensitive material as a visible image and photoelectrically reading out the autoradiograph visualized on said radiosensitive material.

9. A signal processing method for determining base sequence of nucleic acids by subjecting digital signals to signal processing, said digital signals corresponding to an autoradiograph of plural resolved rows which are formed by resolving a mixture of base-specific DNA fragments or base-specific RNA fragments labeled with a radioactive element in one-dimensional direction on a support medium, which comprises steps of:

(1) detecting at least two bands in the lower part of each resolved row and numbering the bands consecutively from the lower end;

(2) obtaining correlation between the band'"'"'s number and a resolved distance thereof for each resolved row;

(3) determining difference in the resolved distance between the resolved rows from the resulting correlation and making correction for resolved position on each row by taking said difference as locational deviation of the rows from each other; and

(4) detecting all bands on every resolved row and determining the sequence of the bands on the basis of their positions.

10. The signal processing method as claimed in claim 9, wherein said bands are detected by extracting digital signals along the resolving direction of each resolved row and then finding out positions where level of the extracted signal is maximum, in said steps (1) and (4).

11. The signal processing method as claimed in claim 9, wherein said correlation between the band'"'"'s number and the resolved distance thereof is obtained as a regression line or a regression curve, in said step (2).

12. The signal processing method as claimed in claim 11, wherein said difference in the resolved distance between the resolved rows is determined as a difference in an intercept of the regression line or the regression curve, in said step (3).

13. The signal processing method as claimed in claim 9, wherein correction for the resolved distance is made on each resolved row by detecting inclination of at least one band to the resolving direction for each row and then determining a relative position of said band on other rows on the basis of the inclination thereof, prior to said step (1).

14. The signal processing method as claimed in claim 9, wherein the mixture of the base-specific DNA fragments consists of the four groups of:

(1) guanine-specific DNA fragments;

(2) adenine-specific DNA fragments;

(3) thymine-specific DNA fragments; and

(4) cytosine-specific DNA fragments;

and the resolved rows consist of four rows formed by resolving each of said four groups of the base-specific DNA fragments on the support medium.

15. The signal processing method as claimed in claim 9, wherein said digital signals corresponding to the autoradiograph are obtained by placing the support medium and a stimulable phosphor sheet comprising a stimulable phosphor together in layers to record the autoradiograph of the plural resolved rows on the phosphor sheet as an energy-stored image, irradiating said phosphor sheet with stimulating rays and photoelectrically detecting the autoradiograph as stimulated emission.

16. The signal processing method as claimed in claim 9, wherein said digital signals corresponding to the autoradiograph are obtained by placing the support medium and a radiosensitive material together in layers to record the autoradiograph of the plural resolved rows on the radiosensitive material as a visible image and photoelectrically reading out the autoradiograph visualized on said radiosensitive material.

17. A signal processing method for determining base sequence of nucleic acids by subjecting digital signals to signal processing, said digital signals corresponding to an autoradiograph of plural resolved rows which are formed by resolving a mixture of base-specific DNA fragments or base-specific RNA fragments labeled with a radioactive element in one-dimensional direction on a support medium, which comprises steps of:

(1) detecting at least two bands in the lower part of each resolved row and numbering the bands consecutively from the lower end;

(2) obtaining correlation between the band'"'"'s number and a resolved distance thereof for each resolved row;

(3) determining difference in the resolved distance between the resolved rows from the resulting correlation;

(4) detecting at least one band in the more upper part of each resolved row, making correction for resolved position on each band by taking the resulting difference as locational deviation of the rows from each other, and then numbering the bands consecutively on the basis of their positions;

(5) obtaining the correlation between the band'"'"'s number and the resolved distance with respect to the previously detected bands plus the band detected in the step (4) for each resolved row; and

(6) determining the sequence of all bands on every resolved row on the basis of their corrected positions by repeating the steps (3) to (5).

18. The signal processing method as claimed in claim 17, wherein said bands are detected by extracting digital signals along the resolving direction of each resolved row and then finding out positions where level of the extracted signal is maximum, in said steps (1) and (4).

19. The signal processing method as claimed in claim 17, wherein said correlation between the band'"'"'s number and the resolved distance thereof is obtained as a regression line or a regression curve, in said step (2).

20. The signal processing method as claimed in claim 19, wherein said difference in the resolved distance between the resolved rows is determined as that obtained by extrapolating the regression line or the regression curve in the direction of increasing the band'"'"'s number, in said step (3).

21. The signal processing method as claimed in claim 17, wherein said correlation between the band'"'"'s number and the resolved distance is obtained with respect to the previously detected bands plus the band detected in the step (4) and minus the bands having the lower number for each resolved row, in said step (5).

22. The signal processing method as claimed in claim 17, wherein correction for the resolved distance is made on each resolved row by detecting inclination of at least one band to the resolving direction for each row and then determining a relative position of said band on the other rows on the basis of the inclination thereof, prior to said step (1).

23. The signal processing method as claimed in claim 17, wherein the mixture of the base-specific DNA fragments consists of the four groups of:

(1) guanine-specific DNA fragments;

(2) adenine-specific DNA fragments;

(3) thymine-specific DNA fragments; and

(4) cytosine-specific DNA fragments;

and the resolved rows consist of four rows formed by resolving each of said four groups of the base-specific DNA fragments on the support medium.

24. The signal processing method as claimed in claim 17, wherein said digital signals corresponding to the autoradiograph are obtained by placing the support medium and a stimulable phosphor sheet comprising a stimulable phosphor together in layers to record the autoradiograph of the plural resolved rows on the phosphor sheet as an energy-stored image, irradiating said phosphor sheet with stimulating rays and photoelectrically detecting the autoradiograph as stimulated emission.

25. The signal processing method as claimed in claim 17, wherein said digital signals corresponding to the autoradiograph are obtained by placing the support medium and a radiosensitive material together in layers to record the autoradiograph of the plural resolved rows on the radiosensitive material as a visible image and photoelectrically reading out the autoradiograph visualized on said radiosensitive material.