DNA polymorphism detector: An automated tool that searches for allelic matches in public databases for discrepancies found in clone or cDNA sequences

Chin Yu Chang; Joshua LaBaer

doi:10.1093/bioinformatics/bti298

DNA polymorphism detector: An automated tool that searches for allelic matches in public databases for discrepancies found in clone or cDNA sequences

Chin Yu Chang, Joshua LaBaer

Research output: Contribution to journal › Article › peer-review

2 Scopus citations

Abstract

Summary: DNA polymorphism detector (DPD) is a new web application developed to help automate the process of CDNA clone validation. DPD identifies and highlights discrepancies between any cDNA clone sequence and its expected reference sequence. To determine if these differences correspond to natural genetic polymorphisms (versus artifacts introduced during clone production or evaluation), DPD uses the discrepancies, along with flanking sequences, to search GenBank for identical matching strings. If matching DNA sequences are found, DPD verifies that they are from the same gene. The application then reports the discrepancy as a polymorphism along with the corresponding GenBank reference information.

Original language	English (US)
Pages (from-to)	2133-2135
Number of pages	3
Journal	Bioinformatics
Volume	21
Issue number	9
DOIs	https://doi.org/10.1093/bioinformatics/bti298
State	Published - May 1 2005
Externally published	Yes

ASJC Scopus subject areas

Statistics and Probability
Biochemistry
Molecular Biology
Computer Science Applications
Computational Theory and Mathematics
Computational Mathematics

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10.1093/bioinformatics/bti298

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abstract = "Summary: DNA polymorphism detector (DPD) is a new web application developed to help automate the process of CDNA clone validation. DPD identifies and highlights discrepancies between any cDNA clone sequence and its expected reference sequence. To determine if these differences correspond to natural genetic polymorphisms (versus artifacts introduced during clone production or evaluation), DPD uses the discrepancies, along with flanking sequences, to search GenBank for identical matching strings. If matching DNA sequences are found, DPD verifies that they are from the same gene. The application then reports the discrepancy as a polymorphism along with the corresponding GenBank reference information.",

author = "Chang, {Chin Yu} and Joshua LaBaer",

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doi = "10.1093/bioinformatics/bti298",

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N2 - Summary: DNA polymorphism detector (DPD) is a new web application developed to help automate the process of CDNA clone validation. DPD identifies and highlights discrepancies between any cDNA clone sequence and its expected reference sequence. To determine if these differences correspond to natural genetic polymorphisms (versus artifacts introduced during clone production or evaluation), DPD uses the discrepancies, along with flanking sequences, to search GenBank for identical matching strings. If matching DNA sequences are found, DPD verifies that they are from the same gene. The application then reports the discrepancy as a polymorphism along with the corresponding GenBank reference information.

AB - Summary: DNA polymorphism detector (DPD) is a new web application developed to help automate the process of CDNA clone validation. DPD identifies and highlights discrepancies between any cDNA clone sequence and its expected reference sequence. To determine if these differences correspond to natural genetic polymorphisms (versus artifacts introduced during clone production or evaluation), DPD uses the discrepancies, along with flanking sequences, to search GenBank for identical matching strings. If matching DNA sequences are found, DPD verifies that they are from the same gene. The application then reports the discrepancy as a polymorphism along with the corresponding GenBank reference information.

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DNA polymorphism detector: An automated tool that searches for allelic matches in public databases for discrepancies found in clone or cDNA sequences

Abstract

ASJC Scopus subject areas

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