MersV1, Ncbi, Checkpoint, bibRecord, 001185

A k-mer-based barcode DNA classification methodology based on spectral representation and a neural gas network.

Identifieur interne : 001185 ( Ncbi/Checkpoint ); précédent : 001184; suivant : 001186

A k-mer-based barcode DNA classification methodology based on spectral representation and a neural gas network.

Auteurs : Antonino Fiannaca [Italie] ; Massimo La Rosa [Italie] ; Riccardo Rizzo [Italie] ; Alfonso Urso [Italie]

Source :

Artificial intelligence in medicine [ 1873-2860 ] ; 2015.

RBID : pubmed:26170017

Descripteurs français

English descriptors

KwdEn :
- Algorithms, Animals, Base Sequence, Cluster Analysis, Computational Biology, DNA (classification), DNA (genetics), DNA Barcoding, Taxonomic (methods), Databases, Genetic, Decision Trees, Neural Networks, Computer, Reproducibility of Results, Species Specificity, Supervised Machine Learning, Support Vector Machine.
MESH :
- chemical , classification : DNA.
- chemical , genetics : DNA.
- methods : DNA Barcoding, Taxonomic.
- Algorithms, Animals, Base Sequence, Cluster Analysis, Computational Biology, Databases, Genetic, Decision Trees, Neural Networks, Computer, Reproducibility of Results, Species Specificity, Supervised Machine Learning, Support Vector Machine.

Abstract

In this paper, an alignment-free method for DNA barcode classification that is based on both a spectral representation and a neural gas network for unsupervised clustering is proposed.

DOI: 10.1016/j.artmed.2015.06.002
PubMed: 26170017

Affiliations:

Italie

Links toward previous steps (curation, corpus...)

to stream PubMed, to step Corpus: 001554
to stream PubMed, to step Curation: 001554
to stream PubMed, to step Checkpoint: 001659
to stream Ncbi, to step Merge: 001185
to stream Ncbi, to step Curation: 001185

Links to Exploration step

pubmed:26170017

Le document en format XML

<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">A k-mer-based barcode DNA classification methodology based on spectral representation and a neural gas network.</title>
<author><name sortKey="Fiannaca, Antonino" sort="Fiannaca, Antonino" uniqKey="Fiannaca A" first="Antonino" last="Fiannaca">Antonino Fiannaca</name>
<affiliation wicri:level="1"><nlm:affiliation>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo, Italy. Electronic address: fiannaca@pa.icar.cnr.it.</nlm:affiliation>
<country xml:lang="fr">Italie</country>
<wicri:regionArea>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo</wicri:regionArea>
<wicri:noRegion>90128 Palermo</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="La Rosa, Massimo" sort="La Rosa, Massimo" uniqKey="La Rosa M" first="Massimo" last="La Rosa">Massimo La Rosa</name>
<affiliation wicri:level="1"><nlm:affiliation>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo, Italy.</nlm:affiliation>
<country xml:lang="fr">Italie</country>
<wicri:regionArea>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo</wicri:regionArea>
<wicri:noRegion>90128 Palermo</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Rizzo, Riccardo" sort="Rizzo, Riccardo" uniqKey="Rizzo R" first="Riccardo" last="Rizzo">Riccardo Rizzo</name>
<affiliation wicri:level="1"><nlm:affiliation>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo, Italy.</nlm:affiliation>
<country xml:lang="fr">Italie</country>
<wicri:regionArea>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo</wicri:regionArea>
<wicri:noRegion>90128 Palermo</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Urso, Alfonso" sort="Urso, Alfonso" uniqKey="Urso A" first="Alfonso" last="Urso">Alfonso Urso</name>
<affiliation wicri:level="1"><nlm:affiliation>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo, Italy.</nlm:affiliation>
<country xml:lang="fr">Italie</country>
<wicri:regionArea>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo</wicri:regionArea>
<wicri:noRegion>90128 Palermo</wicri:noRegion>
</affiliation>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PubMed</idno>
<date when="2015">2015</date>
<idno type="RBID">pubmed:26170017</idno>
<idno type="pmid">26170017</idno>
<idno type="doi">10.1016/j.artmed.2015.06.002</idno>
<idno type="wicri:Area/PubMed/Corpus">001554</idno>
<idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">001554</idno>
<idno type="wicri:Area/PubMed/Curation">001554</idno>
<idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">001554</idno>
<idno type="wicri:Area/PubMed/Checkpoint">001659</idno>
<idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">001659</idno>
<idno type="wicri:Area/Ncbi/Merge">001185</idno>
<idno type="wicri:Area/Ncbi/Curation">001185</idno>
<idno type="wicri:Area/Ncbi/Checkpoint">001185</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en">A k-mer-based barcode DNA classification methodology based on spectral representation and a neural gas network.</title>
<author><name sortKey="Fiannaca, Antonino" sort="Fiannaca, Antonino" uniqKey="Fiannaca A" first="Antonino" last="Fiannaca">Antonino Fiannaca</name>
<affiliation wicri:level="1"><nlm:affiliation>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo, Italy. Electronic address: fiannaca@pa.icar.cnr.it.</nlm:affiliation>
<country xml:lang="fr">Italie</country>
<wicri:regionArea>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo</wicri:regionArea>
<wicri:noRegion>90128 Palermo</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="La Rosa, Massimo" sort="La Rosa, Massimo" uniqKey="La Rosa M" first="Massimo" last="La Rosa">Massimo La Rosa</name>
<affiliation wicri:level="1"><nlm:affiliation>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo, Italy.</nlm:affiliation>
<country xml:lang="fr">Italie</country>
<wicri:regionArea>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo</wicri:regionArea>
<wicri:noRegion>90128 Palermo</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Rizzo, Riccardo" sort="Rizzo, Riccardo" uniqKey="Rizzo R" first="Riccardo" last="Rizzo">Riccardo Rizzo</name>
<affiliation wicri:level="1"><nlm:affiliation>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo, Italy.</nlm:affiliation>
<country xml:lang="fr">Italie</country>
<wicri:regionArea>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo</wicri:regionArea>
<wicri:noRegion>90128 Palermo</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Urso, Alfonso" sort="Urso, Alfonso" uniqKey="Urso A" first="Alfonso" last="Urso">Alfonso Urso</name>
<affiliation wicri:level="1"><nlm:affiliation>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo, Italy.</nlm:affiliation>
<country xml:lang="fr">Italie</country>
<wicri:regionArea>Institute of High-Performance Computing and Networking, National Research Council of Italy, Viale delle Scienze, Ed. 11, 90128 Palermo</wicri:regionArea>
<wicri:noRegion>90128 Palermo</wicri:noRegion>
</affiliation>
</author>
</analytic>
<series><title level="j">Artificial intelligence in medicine</title>
<idno type="eISSN">1873-2860</idno>
<imprint><date when="2015" type="published">2015</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Algorithms</term>
<term>Animals</term>
<term>Base Sequence</term>
<term>Cluster Analysis</term>
<term>Computational Biology</term>
<term>DNA (classification)</term>
<term>DNA (genetics)</term>
<term>DNA Barcoding, Taxonomic (methods)</term>
<term>Databases, Genetic</term>
<term>Decision Trees</term>
<term>Neural Networks, Computer</term>
<term>Reproducibility of Results</term>
<term>Species Specificity</term>
<term>Supervised Machine Learning</term>
<term>Support Vector Machine</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>ADN ()</term>
<term>ADN (génétique)</term>
<term>Algorithmes</term>
<term>Analyse de regroupements</term>
<term>Animaux</term>
<term>Apprentissage machine supervisé</term>
<term>Arbres de décision</term>
<term>Bases de données génétiques</term>
<term>Biologie informatique</term>
<term>Codage à barres de l'ADN pour la taxonomie ()</term>
<term>Machine à vecteur de support</term>
<term>Reproductibilité des résultats</term>
<term>Spécificité d'espèce</term>
<term>Séquence nucléotidique</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="classification" xml:lang="en"><term>DNA</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ADN</term>
</keywords>
<keywords scheme="MESH" qualifier="methods" xml:lang="en"><term>DNA Barcoding, Taxonomic</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Algorithms</term>
<term>Animals</term>
<term>Base Sequence</term>
<term>Cluster Analysis</term>
<term>Computational Biology</term>
<term>Databases, Genetic</term>
<term>Decision Trees</term>
<term>Neural Networks, Computer</term>
<term>Reproducibility of Results</term>
<term>Species Specificity</term>
<term>Supervised Machine Learning</term>
<term>Support Vector Machine</term>
</keywords>
<keywords scheme="MESH" xml:lang="fr"><term>ADN</term>
<term>Algorithmes</term>
<term>Analyse de regroupements</term>
<term>Animaux</term>
<term>Apprentissage machine supervisé</term>
<term>Arbres de décision</term>
<term>Bases de données génétiques</term>
<term>Biologie informatique</term>
<term>Codage à barres de l'ADN pour la taxonomie</term>
<term>Machine à vecteur de support</term>
<term>Reproductibilité des résultats</term>
<term>Spécificité d'espèce</term>
<term>Séquence nucléotidique</term>
</keywords>
</textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en">In this paper, an alignment-free method for DNA barcode classification that is based on both a spectral representation and a neural gas network for unsupervised clustering is proposed.</div>
</front>
</TEI>
<affiliations><list><country><li>Italie</li>
</country>
</list>
<tree><country name="Italie"><noRegion><name sortKey="Fiannaca, Antonino" sort="Fiannaca, Antonino" uniqKey="Fiannaca A" first="Antonino" last="Fiannaca">Antonino Fiannaca</name>
</noRegion>
<name sortKey="La Rosa, Massimo" sort="La Rosa, Massimo" uniqKey="La Rosa M" first="Massimo" last="La Rosa">Massimo La Rosa</name>
<name sortKey="Rizzo, Riccardo" sort="Rizzo, Riccardo" uniqKey="Rizzo R" first="Riccardo" last="Rizzo">Riccardo Rizzo</name>
<name sortKey="Urso, Alfonso" sort="Urso, Alfonso" uniqKey="Urso A" first="Alfonso" last="Urso">Alfonso Urso</name>
</country>
</tree>
</affiliations>
</record>

Pour manipuler ce document sous Unix (Dilib)

EXPLOR_STEP=$WICRI_ROOT/Sante/explor/MersV1/Data/Ncbi/Checkpoint

HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 001185 | SxmlIndent | more

HfdSelect -h $EXPLOR_AREA/Data/Ncbi/Checkpoint/biblio.hfd -nk 001185 | SxmlIndent | more

Pour mettre un lien sur cette page dans le réseau Wicri

{{Explor lien
   |wiki=    Sante
   |area=    MersV1
   |flux=    Ncbi
   |étape=   Checkpoint
   |type=    RBID
   |clé=     pubmed:26170017
   |texte=   A k-mer-based barcode DNA classification methodology based on spectral representation and a neural gas network.
}}

Pour générer des pages wiki

HfdIndexSelect -h $EXPLOR_AREA/Data/Ncbi/Checkpoint/RBID.i   -Sk "pubmed:26170017" \
       | HfdSelect -Kh $EXPLOR_AREA/Data/Ncbi/Checkpoint/biblio.hfd   \
       | NlmPubMed2Wicri -a MersV1

This area was generated with Dilib version V0.6.33.
Data generation: Mon Apr 20 23:26:43 2020. Site generation: Sat Mar 27 09:06:09 2021

	Serveur d'exploration MERS
	Attention, ce site est en cours de développement ! Attention, site généré par des moyens informatiques à partir de corpus bruts. Les informations ne sont donc pas validées.

Serveur d'exploration MERS

A k-mer-based barcode DNA classification methodology based on spectral representation and a neural gas network.

A k-mer-based barcode DNA classification methodology based on spectral representation and a neural gas network.

Source :

Descripteurs français

English descriptors

Abstract

Links toward previous steps (curation, corpus...)

Links to Exploration step

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri

Pour générer des pages wiki