Literature DB >> 18437263

Normalization of full-length enriched cDNA.

Ekaterina A Bogdanova1, Dmitry A Shagin, Sergey A Lukyanov.   

Abstract

Analysis of rare messages in cDNA libraries is extremely difficult due to the substantial variations in the abundance of different transcripts in cells and tissues. Therefore, for rare transcript searches and analyses, the generation of equalized (normalized) cDNA is essential. Several cDNA normalization methods have been developed since 1990. A number of these methods have been optimized for the normalization of full-length enriched cDNA, and used in various applications, including transcriptome analysis and functional screening of cDNA libraries. One such procedure (named DSN-normalization) is based on the unique properties of duplex-specific nuclease (DSN) from kamchatka crab and allows the generation of normalized cDNA libraries with a high gene discovery rate.

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Year:  2008        PMID: 18437263     DOI: 10.1039/b715110c

Source DB:  PubMed          Journal:  Mol Biosyst        ISSN: 1742-2051


  22 in total

1.  DSN depletion is a simple method to remove selected transcripts from cDNA populations.

Authors:  Ekaterina A Bogdanova; Irina A Shagina; Elena Mudrik; Igor Ivanov; Peter Amon; Laura L Vagner; Sergey A Lukyanov; Dmitry A Shagin
Journal:  Mol Biotechnol       Date:  2009-01-06       Impact factor: 2.695

2.  Synthetic spike-in standards for RNA-seq experiments.

Authors:  Lichun Jiang; Felix Schlesinger; Carrie A Davis; Yu Zhang; Renhua Li; Marc Salit; Thomas R Gingeras; Brian Oliver
Journal:  Genome Res       Date:  2011-08-04       Impact factor: 9.043

Review 3.  Single cell genome sequencing.

Authors:  Suzan Yilmaz; Anup K Singh
Journal:  Curr Opin Biotechnol       Date:  2011-12-07       Impact factor: 9.740

4.  Increased sensitivity of next generation sequencing-based expression profiling after globin reduction in human blood RNA.

Authors:  Anastasios Mastrokolias; Johan T den Dunnen; Gertjan B van Ommen; Peter A C 't Hoen; Willeke M C van Roon-Mom
Journal:  BMC Genomics       Date:  2012-01-18       Impact factor: 3.969

5.  Enhancing biological signals and detection rates in single-cell RNA-seq experiments with cDNA library equalization.

Authors:  Rhonda Bacher; Li-Fang Chu; Cara Argus; Jennifer M Bolin; Parker Knight; James A Thomson; Ron Stewart; Christina Kendziorski
Journal:  Nucleic Acids Res       Date:  2022-01-25       Impact factor: 16.971

6.  Transcriptome characterization via 454 pyrosequencing of the annelid Pristina leidyi, an emerging model for studying the evolution of regeneration.

Authors:  Kevin G Nyberg; Matthew A Conte; Jamie L Kostyun; Alison Forde; Alexandra E Bely
Journal:  BMC Genomics       Date:  2012-06-29       Impact factor: 3.969

7.  EST and EST-SSR marker resources for Iris.

Authors:  Shunxue Tang; Rebecca A Okashah; Marie-Michele Cordonnier-Pratt; Lee H Pratt; Virgil Ed Johnson; Christopher A Taylor; Michael L Arnold; Steven J Knapp
Journal:  BMC Plant Biol       Date:  2009-06-10       Impact factor: 4.215

8.  Development of a porcine (Sus scofa) embryo-specific microarray: array annotation and validation.

Authors:  Stephen Tsoi; Chi Zhou; Jason R Grant; J Alexander Pasternak; John Dobrinsky; Philippe Rigault; Julie Nieminen; Marc-André Sirard; Claude Robert; George R Foxcroft; Michael K Dyck
Journal:  BMC Genomics       Date:  2012-08-03       Impact factor: 3.969

9.  Construction and evaluation of normalized cDNA libraries enriched with full-length sequences for rapid discovery of new genes from Sisal (Agave sisalana Perr.) different developmental stages.

Authors:  Wen-Zhao Zhou; Yan-Mei Zhang; Jun-Ying Lu; Jun-Feng Li
Journal:  Int J Mol Sci       Date:  2012-10-12       Impact factor: 5.923

10.  Consequences of normalizing transcriptomic and genomic libraries of plant genomes using a duplex-specific nuclease and tetramethylammonium chloride.

Authors:  Marta Matvienko; Alexander Kozik; Lutz Froenicke; Dean Lavelle; Belinda Martineau; Bertrand Perroud; Richard Michelmore
Journal:  PLoS One       Date:  2013-02-08       Impact factor: 3.240

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