Long-read sequencing: Steven Salzberg, Johns Hopkins University
01/24/23 • 38 min
Dr. Steven Salzberg is a Johns Hopkins University researcher and director of the Center for Computational Biology at Hopkins. I spoke with him about genomics, about long-read sequencing, about human biology and human diversity, about funding, technology choice, about complete and incomplete genomes, about jobs in bioinformatics. He described his technology choices and about the choices one has to make in small labs. He shared his thoughts about the trend toward pangenomes and graph genomes. And he described how technology has changed and how happy that makes him. Teeny reminder, Steven Salzberg headed bioinformatics at TIGR, the Institute for Genomic Research run by J. Craig Venter. It was part of the venture to determine the sequence of the human genome. And yes, there were human genome assemblies based on teeny tiny read lengths.
Dr. Steven Salzberg is a Johns Hopkins University researcher and director of the Center for Computational Biology at Hopkins. I spoke with him about genomics, about long-read sequencing, about human biology and human diversity, about funding, technology choice, about complete and incomplete genomes, about jobs in bioinformatics. He described his technology choices and about the choices one has to make in small labs. He shared his thoughts about the trend toward pangenomes and graph genomes. And he described how technology has changed and how happy that makes him. Teeny reminder, Steven Salzberg headed bioinformatics at TIGR, the Institute for Genomic Research run by J. Craig Venter. It was part of the venture to determine the sequence of the human genome. And yes, there were human genome assemblies based on teeny tiny read lengths.
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Long-read sequencing: Gordon Sanghera, CEO of Oxford Nanopore Technologies.
When scientists want to know about genes, chances are they use instruments called sequencers. Some of them can generate long-reads, which helps with analyzing genomes. The method of the year according to Nature Methods is: long read-sequencing. For a story I chatted with scientists at companies and in academia about long-read sequencing and did some podcasts, too. This episode is with Dr. Gordon Sanghera, CEO of Oxford Nanopore Technologies. (Art: J. Jackson).The following music was used for this media project: Winnie The Moog, Funky Energetic Intro and Acid Trumpet by Kevin MacLeod Free download: https://filmmusic.io/song/3340-acid-trumpet License (CC BY 4.0): https://filmmusic.io/standard-license
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Cells push things around and get pushed around, it's all in a day's work. Tracking this, such as by tracking actin and the cytoskeleton, takes microscopy and labels. Lifeact, for example, is a popular, widely used label. This conversation is with the Lifeact developers Dr. Michael Sixt from Institute of Science and Technology Austria and Dr. Roland Wedlich-Söldner from the University of Münster in Germany. Among other topics, they talk about how the label came to be, how to use it, what's next and whether or not cells practice bodyslamming. (Art: J. Jackson, Music: Funky Energetic Intro by Winnie the Mook licensed from film music.io and Rice Crackers from Aves, licensed from Artlist.io.)
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