COOPERATION-BASED METHOD OF MANAGING, DISPLAYING, AND UPDATING DNA SEQUENCE DATA

• US 20120110430A1
• Filed: 10/28/2011
• Published: 05/03/2012
• Est. Priority Date: 10/28/2010
• Status: Active Grant

• Current Assignee: Samsung SDS (China) Co., Ltd. (Samsung Group)
• Original Assignee: Samsung SDS (China) Co., Ltd. (Samsung Group)
• Inventors: PARK, Minseo, LEE, Jung-Youn
• Granted Patent: US 8,990,231 B2
• Time in Patent Office: Days
• US Class Current: 715/230
• CPC Class Codes: G16B 20/00 ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
• CPC Class Codes: G16B 20/20 Allele or variant detection, e.g. single nucleotide polymorphism [SNP] detection
• CPC Class Codes: G16B 45/00 ICT specially adapted for bioinformatics-related data visualisation, e.g. displaying of maps or networks
• CPC Class Codes: G16B 50/00 ICT programming tools or database systems specially adapted for bioinformatics
• CPC Class Codes: G16B 50/10 Ontologies; Annotations

Abstract

Cooperation-based method of managing, displaying, and updating DNA sequence data is provided. According to an aspect of the present invention, there is provided a cooperation-based method of managing DNA sequence data, the method comprising receiving annotation data inputted for an anchor corresponding to at least one base of a DNA sequence; and storing the received annotation data in an annotation data table which comprises one or more columns for annotation data. Present invention provides a cooperation-based method of managing, displaying, and updating DNA sequence data, the method allowing research results related to a DNA sequence to be shared freely.

Claims

1. A cooperation-based method of managing DNA sequence data, the method comprising:

receiving annotation data inputted for an anchor corresponding to at least one base of a DNA sequence; and

storing the received annotation data in an annotation data table which comprises one or more columns for annotation data.

2. The cooperation-based method of claim 1, wherein the columns for the annotation data comprise an annotation type column which stores one of pre-designated annotation types.

3. The cooperation-based method of claim 1, wherein the columns for the annotation data comprise an annotation evaluation value column which stores an evaluation value calculated based on evaluations by users other than an annotation author.

4. The cooperation-based method of claim 1, wherein the columns for the annotation data comprise a contents column which stores a character string representing the content of an annotation and a keyword column which stores information about a keyword extracted from the character string by comparing the character string with a keyword dictionary.

5. A cooperation-based method of displaying DNA sequence data, the method comprising:

receiving data about a position of a anchor, which corresponds to at least one base of a DNA sequence, in the DNA sequence; and

displaying the position of the anchor on a DNA sequence map based on the received data.

6. The cooperation-based method of claim 5, further comprising:

receiving annotation data for the anchors;

receiving information about one or more selected anchors; and

displaying annotation contents contained in annotation data for the selected anchors.

7. The cooperation-based method of claim 6, wherein the displaying of the annotation contents contained in the annotation data for the selected anchors comprises, when two or more annotations exist for each of the selected anchors, arranging and displaying the annotations according to scores calculated based on the similarity between a job of a current user and that of an annotation author contained in the annotation data, the similarity between interests of the current user and those of the annotation author contained in the annotation data, and an evaluation value of the annotation data.

8. The cooperation-based method of claim 5, further comprising:

receiving annotation data for the anchors; and

grouping the anchors based on a keyword included in annotation contents contained in the annotation data and displaying the grouped anchors on the DNA sequence map.

9. The cooperation-based method of claim 5, further comprising:

receiving annotation data for the anchors, wherein the annotation data comprises author information, annotation type information, evaluation value information, and annotation contents; and

filtering the annotation data based on at least one of the author information, the annotation type information, the evaluation value information and the annotation contents and displaying the filtered annotation data.

10. The cooperation-based method of claim 9, wherein the filtering of the annotation data and the displaying of the filtered data comprises filtering the annotation data using values calculated based on the similarity between a job of a current user and that of an annotation author contained in the annotation data and the similarity between interests of the current user and those of the annotation author contained in the annotation data and displaying the filtered annotation data.

11. A cooperation-based method of updating DNA sequence data, the method comprising:

getting input of a position, at which an annotation is to be input, on a DNA sequence map;

displaying an annotation input interface which comprises an edit region for inputting an annotation; and

transmitting annotation data comprising annotation contents inputted through the edit region and the inputted position to a DNA sequence data storage device.

12. The cooperation-based method of claim 11, wherein the displaying the annotation input interface comprises displaying the annotation input interface which further comprises an annotation type selection region, and the transmitting annotation data storage device comprises transmitting annotation data, which further comprise an annotation type selected through the annotation type selection region, to the DNA sequence data storage device.

13. The cooperation-based method of claim 12, wherein the getting input of a position comprises getting input of a position of one of anchors shown on the DNA sequence map, the displaying of the annotation input interface comprises displaying the annotation input interface which further comprises an evaluation selection region for selecting an evaluation of an existing annotation when the selected annotation type is a reply type to the existing annotation, and the transmitting annotation data comprises transmitting information about the evaluation of the existing annotation selected through the evaluation selection region to the DNA sequence data storage device.

14. The cooperation-based method of claim 11, further comprising getting input for designating whether to make the inputted annotation contents public.

15. A cooperation-based system for managing DNA sequence data, the system comprising:

a database (DB) server storing annotation data for a anchor, wherein the anchor corresponds to at least one base of a DNA sequence, and DNA sequence data; and

a service server transmitting a portion of the annotation data and a portion of the DNA sequence data corresponding to an area requested by a client, to the client, receiving annotation data for a anchor comprising position information of the anchor from the client, processing the received annotation data into an annotation data format, and storing the processed annotation data in the DB server.

16. The cooperation-based system of claim 15, further comprising the client receiving the portion of the annotation data and the portion of the DNA sequence data from the service server, displaying a DNA sequence map on which position of the anchor contained in the portion of the annotation data are shown, getting input of position information of an anchor and annotation contents for the anchor from a user, and transmitting the inputted position information and annotation contents to the service server.

17. The cooperation-based system of claim 16, wherein the client groups the anchors based on a keyword included in annotation contents contained in the portion of the annotation data and displays the grouped anchors on the DNA sequence map.