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SEQC2 Article Collection

The MicroArray and Sequencing Quality Control (MAQC/SEQC) consortium helps with improving microarray and next-generation sequencing technologies and their application. Sequencing Quality Control Phase 2 (SEQC2) is the fourth project of MAQC that performs analytical validation of NGS applications. The specific aims are developing quality metrics for reproducible NGS results, benchmarking bioinformatics methods for whole genome sequencing and targeted gene sequencing towards the development of standard data analysis protocols, and measuring the impact of experimental and bioinformatic variables on the generation and analysis of NGS data. 

Genome Biology is happy to publish these companion articles to the project.

  1. Cytosine modifications in DNA such as 5-methylcytosine (5mC) underlie a broad range of developmental processes, maintain cellular lineage specification, and can define or stratify types of cancer and other dis...

    Authors: Jonathan Foox, Jessica Nordlund, Claudia Lalancette, Ting Gong, Michelle Lacey, Samantha Lent, Bradley W. Langhorst, V. K. Chaithanya Ponnaluri, Louise Williams, Karthik Ramaswamy Padmanabhan, Raymond Cavalcante, Anders Lundmark, Daniel Butler, Christopher Mozsary, Justin Gurvitch, John M. Greally…

    Citation: Genome Biology 2021 22:332

    Content type: Research

    Published on:

  2. Oncopanel genomic testing, which identifies important somatic variants, is increasingly common in medical practice and especially in clinical trials. Currently, there is a paucity of reliable genomic reference...

    Authors: Wendell Jones, Binsheng Gong, Natalia Novoradovskaya, Dan Li, Rebecca Kusko, Todd A. Richmond, Donald J. Johann Jr, Halil Bisgin, Sayed Mohammad Ebrahim Sahraeian, Pierre R. Bushel, Mehdi Pirooznia, Katherine Wilkins, Marco Chierici, Wenjun Bao, Lee Scott Basehore, Anne Bergstrom Lucas…

    Citation: Genome Biology 2021 22:111

    Content type: Research

    Published on:

    The Research to this article has been published in Genome Biology 2021 22:109

  3. Targeted sequencing using oncopanels requires comprehensive assessments of accuracy and detection sensitivity to ensure analytical validity. By employing reference materials characterized by the U.S. Food and ...

    Authors: Binsheng Gong, Dan Li, Rebecca Kusko, Natalia Novoradovskaya, Yifan Zhang, Shangzi Wang, Carlos Pabón-Peña, Zhihong Zhang, Kevin Lai, Wanshi Cai, Jennifer S. LoCoco, Eric Lader, Todd A. Richmond, Vinay K. Mittal, Liang-Chun Liu, Donald J. Johann Jr…

    Citation: Genome Biology 2021 22:109

    Content type: Research

    Published on:

    The Research to this article has been published in Genome Biology 2021 22:111