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Genomic technologies: development and clinical application

Guest editor: Stephen Kingsmore

Genome Medicine is pleased to present a special issue on Genomic technologies: development and clinical application. It captures the recent advances in a broad range of genomic technologies with potential to aid in understanding, preventing, diagnosing and treating disease.

This collection of articles has not been sponsored and articles have undergone the journal’s standard peer-review process. The Guest editor declares no competing interests.

  1. Single-cell RNA sequencing (scRNA-Seq) is an increasingly popular platform to study heterogeneity at the single-cell level. Computational methods to process scRNA-Seq data are not very accessible to bench scie...

    Authors: Xun Zhu, Thomas K. Wolfgruber, Austin Tasato, Cédric Arisdakessian, David G. Garmire and Lana X. Garmire

    Citation: Genome Medicine 2017 9:108

    Content type: Software

    Published on:

  2. Establishing the cancer type and site of origin is important in determining the most appropriate course of treatment for cancer patients. Patients with cancer of unknown primary, where the site of origin canno...

    Authors: Kee Pang Soh, Ewa Szczurek, Thomas Sakoparnig and Niko Beerenwinkel

    Citation: Genome Medicine 2017 9:104

    Content type: Research

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  3. Massively parallel DNA sequencing, such as exome sequencing, has become a routine clinical procedure to identify pathogenic variants responsible for a patient’s phenotype. Exome sequencing has the capability o...

    Authors: Hayk Barseghyan, Wilson Tang, Richard T. Wang, Miguel Almalvez, Eva Segura, Matthew S. Bramble, Allen Lipson, Emilie D. Douine, Hane Lee, Emmanuèle C. Délot, Stanley F. Nelson and Eric Vilain

    Citation: Genome Medicine 2017 9:90

    Content type: Research

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  4. A major aim of cancer genomics is to pinpoint which somatically mutated genes are involved in tumor initiation and progression. We introduce a new framework for uncovering cancer genes, differential mutation a...

    Authors: Pawel F. Przytycki and Mona Singh

    Citation: Genome Medicine 2017 9:79

    Content type: Method

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    The Correction to this article has been published in Genome Medicine 2018 10:35

  5. RNA sequencing (RNA-seq) is a genomic approach for the detection and quantitative analysis of messenger RNA molecules in a biological sample and is useful for studying cellular responses. RNA-seq has fueled mu...

    Authors: Ashraful Haque, Jessica Engel, Sarah A. Teichmann and Tapio Lönnberg

    Citation: Genome Medicine 2017 9:75

    Content type: Review

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  6. Onco-proteogenomics aims to understand how changes in a cancer’s genome influences its proteome. One challenge in integrating these molecular data is the identification of aberrant protein products from mass-s...

    Authors: Javier A. Alfaro, Alexandr Ignatchenko, Vladimir Ignatchenko, Ankit Sinha, Paul C. Boutros and Thomas Kislinger

    Citation: Genome Medicine 2017 9:62

    Content type: Research

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  7. A key step in cancer genome analysis is the identification of somatic mutations in the tumor. This is typically done by comparing the genome of the tumor to the reference genome sequence derived from a normal ...

    Authors: Irina Kalatskaya, Quang M. Trinh, Melanie Spears, John D. McPherson, John M. S. Bartlett and Lincoln Stein

    Citation: Genome Medicine 2017 9:59

    Content type: Software

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  8. Biomedical research is becoming increasingly large-scale and international. Cloud computing enables the comprehensive integration of genomic and clinical data, and the global sharing and collaborative processi...

    Authors: Fruzsina Molnár-Gábor, Rupert Lueck, Sergei Yakneen and Jan O. Korbel

    Citation: Genome Medicine 2017 9:58

    Content type: Opinion

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  9. Genome rearrangements are critical oncogenic driver events in many malignancies. However, the identification and resolution of the structure of cancer genomic rearrangements remain challenging even with whole ...

    Authors: Stephanie U. Greer, Lincoln D. Nadauld, Billy T. Lau, Jiamin Chen, Christina Wood-Bouwens, James M. Ford, Calvin J. Kuo and Hanlee P. Ji

    Citation: Genome Medicine 2017 9:57

    Content type: Research

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  10. Recent advances in genome sequencing of single microbial cells enable the assignment of functional roles to members of the human microbiome that cannot currently be cultured. This approach can reveal the genom...

    Authors: Andrew C. Tolonen and Ramnik J. Xavier

    Citation: Genome Medicine 2017 9:56

    Content type: Comment

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  11. The pathogenesis of neurological and mental health disorders often involves multiple genes, complex interactions, as well as brain- and development-specific biological mechanisms. These characteristics make id...

    Authors: Saskia Freytag, Rosemary Burgess, Karen L. Oliver and Melanie Bahlo

    Citation: Genome Medicine 2017 9:55

    Content type: Software

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  12. Genome-wide loss-of-function profiling is widely used for systematic identification of genetic dependencies in cancer cells; however, the poor reproducibility of RNA interference (RNAi) screens has been a majo...

    Authors: Alok Jaiswal, Gopal Peddinti, Yevhen Akimov, Krister Wennerberg, Sergey Kuznetsov, Jing Tang and Tero Aittokallio

    Citation: Genome Medicine 2017 9:51

    Content type: Research

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