BIOLOGICAL SYSTEM INFORMATION RETRIEVAL SYSTEM AND METHOD THEREOF

• US 20190332634A1
• Filed: 01/08/2018
• Published: 10/31/2019
• Est. Priority Date: 01/09/2017
• Status: Active Grant

• Current Assignee: Sun-Joong Kim
• Original Assignee: Sun-Joong Kim
• Inventors: KIM, Sun-Joong
• Granted Patent: US 11,308,172 B2
• Time in Patent Office: Days
• CPC Class Codes: G06F 16/26 Visual data mining; Browsing structured data
• CPC Class Codes: G06F 16/9532 Query formulation
• CPC Class Codes: G06F 16/9538 Presentation of query results
• 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: G16H 70/00 ICT specially adapted for the handling or processing of medical references
• CPC Class Codes: Y02A 90/10 Information and communication technologies [ICT] supporting adaptation to climate change, e.g. for weather forecasting or climate simulation

Abstract

Biological System information retrieval system and method thereof disclosed. The biological system information retrieval system may include a query inputting unit, configured for inputting a retrieval query being described to have at least one of a current state and an expected result, a query parsing unit, configured for extracting a token for the current state and the expected result from the retrieval query, and generating at least one of a first corpus data set for the current state and a second corpus data set for the expected result by using the token, and a retrieval requesting unit, configured for inputting at least one of the first corpus data set and the second corpus data set and an option value being generated according to a predetermined syntax to an information management device in order to retrieve a biological system information having similarity.

Claims

1. A biological system information retrieval system, comprising:

a query inputting unit, configured for inputting a retrieval query being described to have at least one of a current state and an expected result;

a query parsing unit, configured for extracting a token for the current state and the expected result from the retrieval query, and generating at least one of a first corpus data set for the current state and a second corpus data set for the expected result by using the token; and

a retrieval requesting unit, configured for inputting at least one of the first corpus data set and the second corpus data set and an option value being generated according to a predetermined syntax to an information management device in order to retrieve a biological system information having similarity,

wherein the information management device generates, stores and manages the biological system information that is specified by physical relations, ecological relations, and biological relations for each organism.

2. The biological system information retrieval system according to claim 1, wherein the biological system information is structured information in which nodes are indexed respectively with at least one term according to a predetermined syntax, wherein the nodes are CoS (Change of State) element, PPH (Physical Phenomena) element, PEF (Physical Effects) element, Input element, EPH (Ecological Phenomena) element, EBH (Ecological Behavior) element, Organ element, Part element, Entity element, and Action element.

3. The biological system information retrieval system according to claim 2, wherein the retrieval requesting unit assesses a similarity between the token of the corpus data set and a term indexed to correspond to the PEF element of each biological system information and generates an option value for providing at least one biological system information having a similarity index that is equal to or greater than a threshold value if the retrieval query describes any one of the current state and the expected result.

4. The biological system information retrieval system according to claim 2, wherein the retrieval requesting unit assesses a similarity between the token of the corpus data set and a term indexed to the PPH element of each biological system information and generates an option value for providing biological system information having a similarity index that is equal to or greater than a threshold value if the retrieval query describes all of the current state and the expected result.

5. The biological system information retrieval system according to claim 4, wherein the option value allows the information management device to assess a similarity between a noun token included in the first corpus data set and a term indexed to the PPH element and a similarity between a verb token included in the second corpus data set and a term indexed to the PPH element.

6. The biological system information retrieval system according to claim 3, wherein the retrieval requesting unit generates an option value for the information management device to perform a similarity assessment with further consideration for a term indexed to the Organ element, the Part element and the Entity element of each biological system information if the term registered in a biological word dictionary exists among tokens of the corpus data set.

7. The biological system information retrieval system according to claim 3, wherein the retrieval requesting unit generates an option value for the information management device to perform a similarity assessment with further consideration for a term indexed to the CoS element of each biological system information if the term registered in a biological word dictionary exists among tokens of the corpus data set.

8. The biological system information retrieval system according to claim 2 further comprising:

a causal model canvas unit, configured for generating and outputting network graphs for each of a predetermined number of similar biological system information that the information management device provides as a result of the similarity assessment according to the corpus data set and the option value,

wherein the network graphs are displayed to include a term indexed to each node constituting similar biological system information and a predetermined number of thumbnail images corresponding to other biological system information that is assessed to have a derivativity for each node.

9. The biological system information retrieval system according to claim 8, wherein the derivativity for a node that is the CoS element is measured with consideration for a similarity index assessment value that respectively compares an adjective set, a noun set of pre condition and a noun set of post condition that are reconfigured terms indexed to the CoS element of similar biological system information to an adjective set, a noun set of pre condition and a noun set of post condition that are reconfigured terms indexed to the CoS element of the biological system information stored in the information management device.

10. The biological system information retrieval system according to claim 8, wherein the derivativity for node that is the PPH element or the EPH element is measured by dividing terms indexed to corresponding element of similar biological system information into a verb part and a noun part respectively, dividing terms indexed to corresponding element of the biological system information stored in the information management device into a verb part and a noun part respectively, and calculating a similarity index assessment value respectively in a semantic distance calculation scheme.

11. The biological system information retrieval system according to claim 8, wherein the derivativity for node that is the PEF element, the EBH element, or the Organ element is measured by calculating a similarity index assessment value based on whether a term indexed to corresponding element of similar biological system information corresponds to a term indexed to corresponding element of the biological system information stored in the information management device.

12. The biological system information retrieval system according to claim 8, wherein the derivativity for node that is the Input element is measured by calculating a similarity index assessment value for a term indexed to Input element of similar biological system information and a term indexed to the Input element of the biological system information stored in the information management device in a semantic distance calculation scheme.

13. The biological system information retrieval system according to claim 8, wherein the derivativity for node that is the Entity element is measured by a semantic distance calculation scheme based on a hierarchical tree data structure between ITIS unique ID indexed to Entity element of similar biological system information and ITIS unique ID indexed to the Entity element of the biological system information stored in the information management device.

14. The biological system information retrieval system according to claim 8, wherein if one of thumbnail images is clicked, the causal model canvas unit is configured for generating and outputting a network graph according to biological system information corresponding to click thumbnail image.

17. The biological system information retrieval system according to claim 4, wherein the retrieval requesting unit generates an option value for the information management device to perform a similarity assessment with further consideration for a term indexed to the Organ element, the Part element and the Entity element of each biological system information if the term registered in a biological word dictionary exists among tokens of the corpus data set.

18. The biological system information retrieval system according to claim 4, wherein the retrieval requesting unit generates an option value for the information management device to perform a similarity assessment with further consideration for a term indexed to the CoS element of each biological system information if the term registered in a biological word dictionary exists among tokens of the corpus data set.

15. A method of retrieving biological system information on a biological system information retrieval system, comprising:

receiving input of a retrieval query being described to have at least one of a current state and an expected result;

extracting a token for the current state and the expected result from the retrieval query to generate at least one of a first corpus data set for the current state and a second corpus data set for the expected result by using the token;

inputting at least one of the first corpus data set and the second corpus data set and an option value being generated according to a predetermined syntax to an information management device;

receiving a predetermined number of similar biological system information as a result of a similarity assessment according to the corpus data set and the option value from the information management device; and

generating and outputting network graphs for each of the predetermined number of similar biological system information,

wherein the information management device generates, stores and manages the biological system information that is specified by physical relations, ecological relations, and biological relations for each organism.

16. The method according to claim 15, wherein the biological system information is structured information in which nodes are indexed respectively with at least one term according to a predetermined syntax, wherein the nodes are CoS (Change of State) element, PPH (Physical Phenomena) element, PEF (Physical Effects) element, Input element, EPH (Ecological Phenomena) element, EBH (Ecological Behavior) element, Organ element, Part element, Entity element, and Action element,

wherein the network graphs are displayed to include a term indexed to each node constituting similar biological system information and a predetermined number of thumbnail images corresponding to other biological system information that is assessed to have a derivativity for each node.