Evaluating and improving cDNA sequence quality with cQC | Zendy

Celine A. Hayden | Zendy; Travis J. Wheeler | Zendy; Richard A. Jorgensen | Zendy

AI Assistant Blog Pricing

Home ZAIA Blog

Open Access

Evaluating and improving cDNA sequence quality with cQC

Author(s) -

Celine A. Hayden,

Travis J. Wheeler,

Richard A. Jorgensen

Publication year - 2005

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bti709

Subject(s) - complementary dna , biology , expressed sequence tag , sequence (biology) , genetics , arabidopsis , rapid amplification of cdna ends , sequence analysis , nucleic acid sequence , computational biology , gene , molecular cloning , mutant

Errors are prevalent in cDNA sequences but the extent to which sequence collections differ in frequencies and types of errors has not been investigated systematically. cDNA quality control, or cQC, was developed to evaluate the quality of cDNA sequence collections and to revise those sequences that differ from a higher quality genomic sequence. After removing rRNA, vector, bacterial insertion sequence and chimeric cDNA contaminants, small-scale nucleotide discrepancies were found in 51% of cDNA sequences from one Arabidopsis cDNA collection, 89% from a second Arabidopsis collection and 75% from a rice collection. These errors created premature termination codons in 4 and 42% of cDNA sequences in the respective Arabidopsis collections and in 7% of the rice cDNA sequences.

The content you want is available to Zendy users.

Already have an account? Click here to sign in.

Having issues? You can contact us here

Accelerating Research