Roman Cheplyaka
Tuesday 09 November 2021 : In this episode, Jacob Schreiber interviews Žiga Avsec about a recently released model, Enformer. Their discussion begins with...
Monday 27 September 2021 : The Bioinformatics Contest is back this year, and we are back to discuss it! This year’s contest winners Maksym Kovalchuk (1st prize)...
Wednesday 28 July 2021 : In this episode, Apostolos Chalkis presents sampling steady states of metabolic networks as an alternative to the widely used flux...
Wednesday 23 June 2021 : In this episode, Jacob Schreiber interviews Da-Inn Erika Lee about data and computational methods for making sense of 3D genome structure....
Wednesday 21 April 2021 : In this episode, Lindsay Pino discusses the challenges of making quantitative measurements in the field of proteomics. Specifically, she...
Wednesday 31 March 2021 : In this episode, we learn about B cell maturation and class switching from Hamish King. Hamish recently published a paper on this subject in...
Wednesday 10 March 2021 : In this episode, Jacob Schreiber interviews Molly Gasperini about enhancer elements. They begin their discussion by talking about Octant...
Wednesday 17 February 2021 : Polygenic risk scores (PRS) rely on the genome-wide association studies (GWAS) to predict the phenotype based on the genotype. However, the...
Wednesday 16 December 2020 : In this episode, Markus Schmidt explains how seeding in read alignment works. We define and compare k-mers, minimizers, MEMs, SMEMs, and...
Wednesday 18 November 2020 : In this episode, Jacob Schreiber interviews Devin Schweppe about the analysis of mass spectrometry data in the field of proteomics. They...
Tuesday 27 October 2020 : In this episode, Will Freyman talks about identity-by-descent (IBD): how it’s used at 23andMe, and how the templated positional...
Wednesday 07 October 2020 : In this episode, Jacob Schreiber interviews David Kelley about machine learning models that can yield insight into the consequences...
Wednesday 19 August 2020 : In systems biology, Boolean networks are a way to model interactions such as gene regulation or cell signaling. The standard interpretations...
Wednesday 29 July 2020 : In this episode, Jacob Schreiber interviews Marinka Zitnik about applications of machine learning to drug development. They begin their...
Wednesday 24 June 2020 : NGLess is a programming language specifically targeted at next generation sequencing (NGS) data processing. In this episode we chat with its...
Wednesday 27 May 2020 : In this episode, I continue to talk (but mostly listen) to Sergey Koren and Sergey Nurk. If you missed the previous episode, you should...
Wednesday 29 April 2020 : Porcupine is a molecular tagging system—a way to tag physical objects with pieces of DNA called molecular bits, or molbits for...
Friday 27 March 2020 : Will Townes proposes a new, simpler way to analyze scRNA-seq data with unique molecular identifiers (UMIs). Observing that such data is not...
Friday 28 February 2020 : In this episode, we hear from Amatur Rahman and Karel Břinda, who independently of one another released preprints on the same concept,...
Monday 27 January 2020 : Kris Parag is here to teach us about the mathematical modeling of infectious disease epidemics. We discuss the SIR model, the renewal...
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Roman Cheplyaka
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