Filters








40,126 Hits in 6.9 sec

A Decision Tree System for Finding Genes in DNA

STEVEN SALZBERG, ARTHUR L. DELCHER, KENNETH H. FASMAN, JOHN HENDERSON
1998 Journal of Computational Biology  
MORGAN is an integrated system for nding genes in vertebrate DNA sequences.  ...  This paper describes the MORGAN system, including its decision tree routines and the algorithms for site recognition, and its performance on a benchmark database of vertebrate DNA.  ...  Acknowledgements Thanks to Simon Kasif for many helpful suggestions, and to Xin Chen for help on the initial software development.  ... 
doi:10.1089/cmb.1998.5.667 pmid:10072083 fatcat:kjavi7c6jzhhjnkxyy5xzoys2q

Finding genes in DNA using decision trees and dynamic programming

S Salzberg, X Chen, J Henderson, K Fasman
1996 Proceedings. International Conference on Intelligent Systems for Molecular Biology  
This study demonstrates the use of decision tree classifiers as the basis for a general gene-finding system.  ...  Experimental results on a newly collected database of human DNA sequences are encouraging, and some new observations about the structure of classifiers for the gene-finding problem have emerged from this  ...  Acknowledgements Thanks to Simon Kasif for many helpful suggestions. This material is based upon work supported by the National Science foundation under Grant Nos.  ... 
pmid:8877520 fatcat:t5l4b5tu7nazxn3ww3oak7hsoi

An Approach towards Automated Disease Diagnosis & Drug Design Using Hybrid Rough-Decision Tree from Microarray Dataset

Sudip Mandal Goutam Saha
2013 Journal of computer science and systems biology  
DNA microarrays (gene arrays or gene chips) usually consist of thin glass or nylon substrates containing specific DNA gene samples spotted in an array by a robotic printing device.  ...  This knowledge can serve as a diagnostic tool to identify the culprit gene(s) which may eventually be helpful in finding the most accurate treatment process for a particular disease.  ... 
doi:10.4172/0974-7230.1000132 fatcat:zf63jfxehzbxxihn4xhmfi6zri

An Approach towards Automated Disease Diagnosis & Drug Design Using Hybrid Rough-Decision Tree from Microarray Dataset

Sudip Mandal
2013 Journal of computer science and systems biology  
DNA microarrays (gene arrays or gene chips) usually consist of thin glass or nylon substrates containing specific DNA gene samples spotted in an array by a robotic printing device.  ...  This knowledge can serve as a diagnostic tool to identify the culprit gene(s) which may eventually be helpful in finding the most accurate treatment process for a particular disease.  ... 
doi:10.4172/0974-7230.1000130 fatcat:ur6imhtzbrgw5paw46jtx3dq4q

GENETIC ALGORITHM WITH BAGGING FOR DNA CLASSIFICATION

Balamurugan E, Jackson Akpajaro
2021 International journal of advances in signal and image sciences  
In this paper, Genetic Algorithm (GA) with bagging is developed for DeoxyriboNucleic Acid (DNA) classification.  ...  The evaluation of DNA classification system is performed on five cancers; colon, Central Nervous System (CNS), ovarian, leukemia and breast.  ...  Decision tree is a simple and unique method in machine learning.  ... 
doi:10.29284/ijasis.7.2.2021.31-39 fatcat:xcrgk7ghiveidktlgj34sfjv7y

Discriminative discovery of transcription factor binding sites from location data

Yuji Kawada, Yasubumi Sakakibara
2005 Proceedings. IEEE Computational Systems Bioinformatics Conference  
First, in order to discover an initial set of discriminative substrings between positive and negative samples, we apply a decision tree learning method which produces a text-classification tree.  ...  genes by a transcription factor (TF)) based on the genome-wide location data.  ...  Introduction The interaction between transcription factors (TFs) and their DNA binding sites (motifs) plays a key role for understanding gene regulation mechanisms.  ... 
pmid:16447966 fatcat:34mpa4cnq5fxhlv5l4lkd4gofe

A Comparative Study of Statistical and Artificial Intelligence based Classification Algorithms on Central Nervous System Cancer Microarray Gene Expression Data

Mustafa Turan Arslan, Adem Kalinli
2016 International Journal of Intelligent Systems and Applications in Engineering  
A variety of methods are used in order to classify cancer gene expression profiles based on microarray data.  ...  Especially, statistical methods such as Support Vector Machines (SVM), Decision Trees (DT) and Bayes are widely preferred to classify on microarray cancer data.  ...  The activity of genes in patient and healthy cells that get same tissues can compare through DNA microarray technology. This technique can help finding genes associated with a disease.  ... 
doi:10.18201/ijisae.267094 fatcat:t4nktpab3fdh3elxyvxb22agh4

Genetic Programming for Mining DNA Chip Data from Cancer Patients

W. B. Langdon, B. F. Buxton
2004 Genetic Programming and Evolvable Machines  
In machine learning terms DNA (gene) chip data is unusual in having thousands of attributes (the gene expression values) but few (< 100) records (the patients).  ...  A GP based method for both feature selection and generating simple models based on a few genes is demonstrated on cancer data.  ...  Table 1 . 1 GP DNA Chip gene mining Objective: Find a simple rule predicting patient survival from gene expression data Function set: Max Min MaxA MinA MUL ADD DIV SUB IFLTE Terminal set: DNA chip expression  ... 
doi:10.1023/b:genp.0000030196.55525.f7 fatcat:36lvc5m6ozgdjkje5zpkd6bb4e

Locating Protein Coding Regions in Human DNA Using a Decision Tree Algorithm

STEVEN SALZBERG
1995 Journal of Computational Biology  
We describe here a new approach, using a machine learning system that builds decision trees from the data.  ...  Genes in eukaryotic DNA cover hundreds or thousands of base pairs, while the regions of those genes that code for proteins may occupy only a small percentage of the sequence.  ...  Murthy for help making modifications to the OC1 source code, and thanks to Kenneth Fasman, Simon Kasif, and Eric Brill for their helpful comments and suggestions.  ... 
doi:10.1089/cmb.1995.2.473 pmid:8521276 fatcat:7utrtnoty5aydkyou4yutuxjui

Fully automatic classification of breast cancer microarray images

Nastaran Dehghan Khalilabad, Hamid Hassanpour, Mohammad Reza Abbaszadegan
2016 Journal of Electrical Systems and Information Technology  
To identify more effective genes, information gain method on the set of raw data is used. Finally, the type of cancer can be recognized via analyzing the obtained data using a decision tree.  ...  A microarray image is used as an accurate method for diagnosis of cancerous diseases. The aim of this research is to provide an approach for detection of breast cancer type.  ...  Also in our proposed system, decision trees are developed to diagnose two subclass tumor.  ... 
doi:10.1016/j.jesit.2016.06.001 fatcat:2p2uyvaflzbdhjyuffew2pjyti

Gene Identification: Classical and Computational Intelligence Approaches

S. Bandyopadhyay, U. Maulik, D. Roy
2008 IEEE Transactions on Systems Man and Cybernetics Part C (Applications and Reviews)  
In addition, a long list of available gene finders is compiled.  ...  In this paper, a detailed survey on the existing classical and computational intelligence based methods for gene identification is carried out.  ...  ACKNOWLEDGMENT The authors gratefully acknowledge the informative comments of the reviewers that helped in improving the quality of the manuscript.  ... 
doi:10.1109/tsmcc.2007.906066 fatcat:g7idd6l4uzboxmm3yckleyz75e

Towards Optimal Feature and Classifier for Gene Expression Classification of Cancer [chapter]

Jungwon Ryu, Sung-Bae Cho
2002 Lecture Notes in Computer Science  
In order to predict the cancer class, the gene information from patient's marrow expressed by DNA microarray, who has either the acute myeloid leukemia or acute lymphoblastic leukemia.  ...  Backpropagation neural network, self-organizing map, structure adaptive self-organizing map, support vector machine, inductive decision tree and k-nearest neighbor have been used for classification.  ...  DNA Microarray DNA arrays consist of large numbers of DNA molecules spotted in a systemic order on a solid substrate.  ... 
doi:10.1007/3-540-45631-7_41 fatcat:vtlonbiytneordpiy245f4xpsm

Global Top-Scoring Pair Decision Tree for Gene Expression Data Analysis [chapter]

Marcin Czajkowski, Marek Kretowski
2013 Lecture Notes in Computer Science  
An application of presented decision trees, which splits instances based on pairwise comparisons of the gene expression values, may have considerable potential for genomic research and scientific modeling  ...  In this chapter, we propose a hybrid solution that combines the above-mentioned methods.  ...  Simple models like decision trees or rule extraction systems, however, may help in understanding underlying processes.  ... 
doi:10.1007/978-3-642-37207-0_20 fatcat:apzabcesu5fqnflky6teghakym

A genetic algorithm approach for predicting ribonucleic acid sequencing data classification using KNN and decision tree

Micheal Olaolu Arowolo, Marion Olubunmi Adebiyi, Adebiyi Ayodele Ariyo, Olatunji Julius Okesola
2021 TELKOMNIKA (Telecommunication Computing Electronics and Control)  
A metaheuristics system for fetching relevant RNA/DNA data genes for classification was proposed by briefing recent developments of metaheuristic-based methods in embedded feature selection methods, useful  ...  and obtain advances that are suitable system for predicting and detecting innovative genes for malaria ailments in human.  ... 
doi:10.12928/telkomnika.v19i1.16381 fatcat:lwdhlxkqufd3fcgsdcd3y2glca

Genome annotation and comparative genomic analysis of Bacillus subtilis MJ01, a new bio-degradation strain isolated from oil-contaminated soil

Touraj Rahimi, Ali Niazi, Tahereh Deihimi, Seyed Mohsen Taghavi, Shahab Ayatollahi, Esmaeil Ebrahimie
2018 Functional & Integrative Genomics  
Our findings enhance understanding the molecular mechanism of surfactin production through systems biology analysis.  ...  Attribute weighting algorithms and decision tree analysis revealed ihf, rpoD and flHCD as the most important TF among surfactin production.  ...  A decision tree that did not separate two classes of genes (surfactin and other genes) completely B. A decision tree separated two classes of genes (surfactin and other genes) completely. C.  ... 
doi:10.1007/s10142-018-0604-1 pmid:29730772 fatcat:e54xftbfanhdtemnyf6h6pos6a
« Previous Showing results 1 — 15 out of 40,126 results