Response to Comment on “DNA damage is a pervasive cause of sequencing errors, directly confounding variant identification”.
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| Title: | Response to Comment on “DNA damage is a pervasive cause of sequencing errors, directly confounding variant identification”. |
|---|---|
| Authors: | Lixin Chen (AUTHOR), Pingfang Liu (AUTHOR), Evans Jr., Thomas C. (AUTHOR), Ettwiller, Laurence M. (AUTHOR) |
| Source: | Science (pre-March 2025). 9/28/2018, Vol. 361 Issue 6409, p1-4. 4p. 1 Chart, 2 Graphs. |
| Abstract: | Following the Comment of Stewart et al., we repeated our analysis on sequencing runs from The Cancer Genome Atlas (TCGA) using their suggested parameters.We found signs of oxidative damage in all sequence contexts and irrespective of the sequencing date, reaffirming that DNA damage affects mutation-calling pipelines in their ability to accurately identify somatic variations. [ABSTRACT FROM AUTHOR] |
| Copyright of Science (pre-March 2025) is the property of American Association for the Advancement of Science and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.) | |
| Database: | Psychology and Behavioral Sciences Collection |
| FullText | Links: – Type: pdflink Text: Availability: 0 |
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| Header | DbId: pbh DbLabel: Psychology and Behavioral Sciences Collection An: 170076649 AccessLevel: 6 PubType: Academic Journal PubTypeId: academicJournal PreciseRelevancyScore: 0 |
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| Items | – Name: Title Label: Title Group: Ti Data: Response to Comment on “DNA damage is a pervasive cause of sequencing errors, directly confounding variant identification”. – Name: Author Label: Authors Group: Au Data: <searchLink fieldCode="AR" term="%22Lixin+Chen%22">Lixin Chen</searchLink> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Pingfang+Liu%22">Pingfang Liu</searchLink> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Evans+Jr%2E%2C+Thomas+C%2E%22">Evans Jr., Thomas C.</searchLink> (AUTHOR)<br /><searchLink fieldCode="AR" term="%22Ettwiller%2C+Laurence+M%2E%22">Ettwiller, Laurence M.</searchLink> (AUTHOR) – Name: TitleSource Label: Source Group: Src Data: <searchLink fieldCode="JN" term="%22Science+%28pre-March+2025%29%22">Science (pre-March 2025)</searchLink>. 9/28/2018, Vol. 361 Issue 6409, p1-4. 4p. 1 Chart, 2 Graphs. – Name: Abstract Label: Abstract Group: Ab Data: Following the Comment of Stewart et al., we repeated our analysis on sequencing runs from The Cancer Genome Atlas (TCGA) using their suggested parameters.We found signs of oxidative damage in all sequence contexts and irrespective of the sequencing date, reaffirming that DNA damage affects mutation-calling pipelines in their ability to accurately identify somatic variations. [ABSTRACT FROM AUTHOR] – Name: AbstractSuppliedCopyright Label: Group: Ab Data: <i>Copyright of Science (pre-March 2025) is the property of American Association for the Advancement of Science and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract.</i> (Copyright applies to all Abstracts.) |
| PLink | https://search.ebscohost.com/login.aspx?direct=true&site=eds-live&db=pbh&AN=170076649 |
| RecordInfo | BibRecord: BibEntity: Identifiers: – Type: doi Value: 10.1126/science.aat0958 Languages: – Code: eng Text: English PhysicalDescription: Pagination: PageCount: 4 StartPage: 1 Titles: – TitleFull: Response to Comment on “DNA damage is a pervasive cause of sequencing errors, directly confounding variant identification”. Type: main BibRelationships: HasContributorRelationships: – PersonEntity: Name: NameFull: Lixin Chen – PersonEntity: Name: NameFull: Pingfang Liu – PersonEntity: Name: NameFull: Evans Jr., Thomas C. – PersonEntity: Name: NameFull: Ettwiller, Laurence M. IsPartOfRelationships: – BibEntity: Dates: – D: 28 M: 09 Text: 9/28/2018 Type: published Y: 2018 Identifiers: – Type: issn-print Value: 00368075 Numbering: – Type: volume Value: 361 – Type: issue Value: 6409 Titles: – TitleFull: Science (pre-March 2025) Type: main |
| ResultId | 1 |
