JP2005003676A5

JP2005003676A5 -

Info

Publication number: JP2005003676A5
Application number: JP2004149387A
Authority: JP
Filing date: 2004-05-19
Publication date: 2007-10-25
Anticipated expiration: 2024-05-19

Description

上記の目的を達成するために本発明に係る情報処理装置は以下のような構成を備える。即ち、
生物種の核酸配列の一部と相補的な核酸であるプローブを配置したＤＮＡマイクロアレイを用いて、所定の検体をハイブリダイゼーション反応させた結果得られたＤＮＡマイクロアレイ上の各プローブのシグナル強度に関する情報を処理する情報処理装置であって、
既知の生物種をハイブリダイゼーション反応させた結果得られた前記各プローブのシグナル強度に関する情報である第１の情報を保持する保持手段と、
前記所定の検体をハイブリダイゼーション反応させた結果得られた各プローブのシグナル強度に関する情報である第２の情報を取得する取得手段と、
前記第１及び第２の情報のうち、判定すべき生物種についてのプローブのシグナル強度に関する情報を抽出する抽出手段と、
前記抽出手段により抽出された前記第１の情報のうちの前記判定すべき生物種についてのプローブのシグナル強度に関する情報と、前記第２の情報のうちの前記判定すべき生物種についてのプローブのシグナル強度に関するとに基づいて、前記所定の検体に、該所定の生物種が含まれているか否かを判定する判定手段とを備える。 In order to achieve the above object, an information processing apparatus according to the present invention comprises the following arrangement. That is,
Information on the signal intensity of each probe on the DNA microarray obtained as a result of the hybridization reaction of a given sample using a DNA microarray in which probes that are nucleic acids complementary to a part of the nucleic acid sequence of a biological species are placed. An information processing apparatus for processing,
Holding means for holding first information that is information on the signal intensity of each probe obtained as a result of a hybridization reaction of a known biological species;
Obtaining means for obtaining second information which is information relating to the signal intensity of each probe obtained as a result of a hybridization reaction of the predetermined specimen;
An extraction means for extracting information on the signal intensity of the probe for the species to be determined among the first and second information;
Signal of the probe for the information about the signal strength of the probe for to be species determination, the to be determined species of said second information of said first information extracted by the extraction means And determining means for determining whether or not the predetermined specimen contains the predetermined species based on the intensity .

Claims

Information on the signal intensity of each probe on the DNA microarray obtained as a result of the hybridization reaction of a given sample using a DNA microarray in which probes that are nucleic acids complementary to a part of the nucleic acid sequence of a biological species are placed. An information processing apparatus for processing,
Holding means for holding first information that is information on the signal intensity of each probe obtained as a result of a hybridization reaction of a known biological species;
Obtaining means for obtaining second information which is information relating to the signal intensity of each probe obtained as a result of a hybridization reaction of the predetermined specimen;
An extraction means for extracting information on the signal intensity of the probe for the species to be determined among the first and second information;
Signal of the probe for the information about the signal strength of the probe for to be species determination, the to be determined species of said second information of said first information extracted by the extraction means An information processing apparatus comprising: a determination unit that determines whether or not the predetermined specimen includes the predetermined species based on the intensity .

The first and second information are
The information processing apparatus according to claim 1, wherein the data is vector data having a signal intensity of each probe as a component in a multidimensional space corresponding to the number of probes on the DNA microarray.

The extraction means includes
The information processing apparatus according to claim 2, wherein conversion is performed to reduce the number of dimensions of vector data as the first and second information.

The extraction means includes
A probe for the species to be determined based on principal component analysis performed on a plurality of vector data including the predetermined species among the vector data as the first information held in the holding unit. The information processing apparatus according to claim 2, wherein information related to the signal intensity of the information is extracted.

The information processing apparatus according to claim 1, wherein the determination unit performs determination by pattern recognition processing.

The determination means is a classification tree, the classification tree is created using a two-branch classification tree ensemble algorithm, and the determination function at each node of the classification tree is the learning data existing at each node. 6. The information processing apparatus according to claim 5, wherein the information processing apparatus is defined by a function indicating which of two learning patterns of different categories selected at random is closer.

Information on the signal intensity of each probe on the DNA microarray obtained as a result of the hybridization reaction of a given sample using a DNA microarray in which probes that are nucleic acids complementary to a part of the nucleic acid sequence of a biological species are placed. An information processing method for processing,
A holding step for holding first information that is information on the signal intensity of each probe obtained as a result of a hybridization reaction of a known biological species;
An acquisition step of acquiring second information that is information on the signal intensity of each probe obtained as a result of a hybridization reaction of the predetermined specimen;
An extraction step of extracting information on the signal intensity of the probe for the species to be determined among the first and second information;
Signal of the probe for the information about the signal strength of the probe for to be species determination, the to be determined species of said second information of said first information extracted by the extraction step A determination step of determining whether or not the predetermined specimen contains the predetermined biological species based on information on intensity .

The first and second information are
8. The information processing method according to claim 7, wherein the data is vector data having a signal intensity of each probe as a component in a multidimensional space corresponding to the number of probes on the DNA microarray.

The extraction step includes
The information processing method according to claim 8, wherein conversion is performed to reduce the number of dimensions of the vector data as the first and second information.

The extraction step includes
Based on principal component analysis performed on a plurality of vector data including the predetermined species among the vector data as the first information held in the holding step, the probe for the species to be determined The information processing method according to claim 8, wherein information relating to the signal intensity of the information is extracted.

The information processing method according to claim 7, wherein the determination step performs determination by pattern recognition processing.

The determination step is processed by a classification tree, the classification tree is created using a two-branch classification tree ensemble algorithm, and the determination function at each node of the classification tree is the learning data existing at each node. The information processing method according to claim 11, wherein the information processing method is defined by a function indicating which of two learning patterns of different categories selected at random is closer.

A control program for realizing the information processing method according to any one of claims 7 to 12 by a computer.

A recording medium storing a control program for realizing the information processing method according to any one of claims 7 to 12 by a computer.