Literature DB >> 23047560

KASpOD--a web service for highly specific and explorative oligonucleotide design.

Nicolas Parisot1, Jérémie Denonfoux, Eric Dugat-Bony, Pierre Peyret, Eric Peyretaillade.   

Abstract

SUMMARY: KASpOD is a web service dedicated to the design of signature sequences using a k-mer-based algorithm. Such highly specific and explorative oligonucleotides are then suitable for various goals, including Phylogenetic Oligonucleotide Arrays. AVAILABILITY: http://g2im.u-clermont1.fr/kaspod. CONTACT: eric.peyretaillade@udamail.fr SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

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Year:  2012        PMID： 23047560     DOI： 10.1093/bioinformatics/bts597

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  21 in total

1.  Strain/species-specific probe design for microbial identification microarrays.

Authors:  Qichao Tu; Zhili He; Ye Deng; Jizhong Zhou
Journal:  Appl Environ Microbiol       Date:  2013-06-07       Impact factor: 4.792

Review 2.  Exploiting the architecture and the features of the microsporidian genomes to investigate diversity and impact of these parasites on ecosystems.

Authors:  E Peyretaillade; D Boucher; N Parisot; C Gasc; R Butler; J-F Pombert; E Lerat; P Peyret
Journal:  Heredity (Edinb)       Date:  2014-09-03       Impact factor: 3.821

3.  RiboTaxa: combined approaches for rRNA genes taxonomic resolution down to the species level from metagenomics data revealing novelties.

Authors:  Oshma Chakoory; Sophie Comtet-Marre; Pierre Peyret
Journal:  NAR Genom Bioinform       Date:  2022-09-21

4.  Exploring the Diversity of Fungal DyPs in Mangrove Soils to Produce and Characterize Novel Biocatalysts.

Authors:  Amal Ben Ayed; Geoffroy Saint-Genis; Laurent Vallon; Dolores Linde; Annick Turbé-Doan; Mireille Haon; Marianne Daou; Emmanuel Bertrand; Craig B Faulds; Giuliano Sciara; Martino Adamo; Roland Marmeisse; Sophie Comtet-Marre; Pierre Peyret; Danis Abrouk; Francisco J Ruiz-Dueñas; Cyril Marchand; Mylène Hugoni; Patricia Luis; Tahar Mechichi; Eric Record
Journal:  J Fungi (Basel)       Date:  2021-04-21

5.  The Prediction and Validation of Small CDSs Expand the Gene Repertoire of the Smallest Known Eukaryotic Genomes.

Authors:  Abdel Belkorchia; Cyrielle Gasc; Valérie Polonais; Nicolas Parisot; Nicolas Gallois; Céline Ribière; Emmanuelle Lerat; Christine Gaspin; Jean-François Pombert; Pierre Peyret; Eric Peyretaillade
Journal:  PLoS One       Date:  2015-09-30       Impact factor: 3.240

Review 6.  Sequence capture by hybridization to explore modern and ancient genomic diversity in model and nonmodel organisms.

Authors:  Cyrielle Gasc; Eric Peyretaillade; Pierre Peyret
Journal:  Nucleic Acids Res       Date:  2016-04-21       Impact factor: 16.971

7.  The human gut chip "HuGChip", an explorative phylogenetic microarray for determining gut microbiome diversity at family level.

Authors:  William Tottey; Jeremie Denonfoux; Faouzi Jaziri; Nicolas Parisot; Mohiedine Missaoui; David Hill; Guillaume Borrel; Eric Peyretaillade; Monique Alric; Hugh M B Harris; Ian B Jeffery; Marcus J Claesson; Paul W O'Toole; Pierre Peyret; Jean-François Brugère
Journal:  PLoS One       Date:  2013-05-17       Impact factor: 3.240

8.  Gene capture coupled to high-throughput sequencing as a strategy for targeted metagenome exploration.

Authors:  Jérémie Denonfoux; Nicolas Parisot; Eric Dugat-Bony; Corinne Biderre-Petit; Delphine Boucher; Diego P Morgavi; Denis Le Paslier; Eric Peyretaillade; Pierre Peyret
Journal:  DNA Res       Date:  2013-01-30       Impact factor: 4.458

9.  PhylOPDb: a 16S rRNA oligonucleotide probe database for prokaryotic identification.

Authors:  Faouzi Jaziri; Nicolas Parisot; Anis Abid; Jérémie Denonfoux; Céline Ribière; Cyrielle Gasc; Delphine Boucher; Jean-François Brugère; Antoine Mahul; David R C Hill; Eric Peyretaillade; Pierre Peyret
Journal:  Database (Oxford)       Date:  2014-04-26       Impact factor: 3.451

10.  Solution hybrid selection capture for the recovery of functional full-length eukaryotic cDNAs from complex environmental samples.

Authors:  Claudia Bragalini; Céline Ribière; Nicolas Parisot; Laurent Vallon; Elsa Prudent; Eric Peyretaillade; Mariangela Girlanda; Pierre Peyret; Roland Marmeisse; Patricia Luis
Journal:  DNA Res       Date:  2014-10-03       Impact factor: 4.458
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