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Base by Base

Gustavo Barra
Genomics
Genetics
Cancer
Neurodevelopmental Disorders
Gene Expression
Spatial Transcriptomics
Gene Regulation
TP53
DNA
Hepatocellular Carcinoma
CYFIP1
Nature Communications
Mitochondria
Spinal Muscular Atrophy
CRISPR
DNA Repair Mechanisms
Retinitis Pigmentosa
Meiosis
Epigenetics
Y Chromosome Bottleneck

Base by Base explores advances in genetics and genomics, with a focus on gene-disease associations, variant interpretation, protein structure, and insights from exome and genome sequencing. Each episode breaks down key studies and their clinical relevance—one base at a time. Powered by AI, Base by Base offers a new way to learn on the go. Special thanks to authors who publish under CC BY 4.0, maki... more

PublishesDailyEpisodes352Foundeda year ago
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MedicineScienceLife SciencesHealth & Fitness

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Latest Episodes

Hou P et al., PNAS - This study combines kinetic assays and X‑ray crystallography to show how 8‑oxo‑guanosine triphosphate (8‑oxo‑rGTP) is incorporated by RNA polymerase II and how its pairing geometry with template bases (dC vs dA) differentially al... more

Wang Y et al et al., PNAS - This episode covers a PNAS study describing v96, a personalized plasma cell-free DNA assay that tracks up to 96 patient-specific mutations to sensitively quantify measurable residual disease (MRD) in AML patients before an... more

Holta KB et al., Proceedings of the National Academy of Sciences (PNAS) - This episode explains a quantitative framework for diffusion on spatially embedded dynamic mitochondrial networks. The study combines analytic theory, agent-based simulations, ... more

Kimchi O et al., PNAS - This computational study shows that self-complementary RNA regions (palindromes) can drive sequence-specific homotypic clustering by enabling multivalent intermolecular base pairing, and that Drosophila nanos and pgc mRNAs are... more

Key Facts

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Recent Guests

Jirko Kuhnisch
Lead researcher on the study introducing new genetic rules for TNNI3 mutations
Max Delbrück Center for Molecular Medicine / Charité – Universitätsmedizin Berlin
Episode: 344: Homozygous TNNI3 p.Arg136* and severe pediatric restrictive cardiomyopathy
Kaneco Weaver
Lead researcher on the study introducing new genetic rules for TNNI3 mutations
Max Delbrück Center for Molecular Medicine / Charité – Universitätsmedizin Berlin
Episode: 344: Homozygous TNNI3 p.Arg136* and severe pediatric restrictive cardiomyopathy
Ruby White
One of the researchers involved in the study at the Malaghan Institute
Malaghan Institute of Medical Research
Episode: 289: MinION detection of chimeric reads in murine Ifna/Ifnb amplicons and ligation-related artifact prevalence
Christophe Pellefigues
One of the researchers involved in the study at the Malaghan Institute
Malaghan Institute of Medical Research
Episode: 289: MinION detection of chimeric reads in murine Ifna/Ifnb amplicons and ligation-related artifact prevalence
Franca Ronchese
One of the researchers involved in the study at the Malaghan Institute
Malaghan Institute of Medical Research
Episode: 289: MinION detection of chimeric reads in murine Ifna/Ifnb amplicons and ligation-related artifact prevalence
Olivier Lamiable
One of the researchers involved in the study at the Malaghan Institute
Malaghan Institute of Medical Research
Episode: 289: MinION detection of chimeric reads in murine Ifna/Ifnb amplicons and ligation-related artifact prevalence
David Eccles
One of the researchers involved in the study at the Malaghan Institute
Malaghan Institute of Medical Research
Episode: 289: MinION detection of chimeric reads in murine Ifna/Ifnb amplicons and ligation-related artifact prevalence
Research Team from Duke University
Team that developed DeepScence and CoreScence.
Duke University
Episode: 167: DeepScence: Detecting Senescent Cells at Single-Cell and Spatial Resolution
Tianxin Zeng
Researcher affiliated with Stanford University
Stanford University
Episode: 149: Cultural Hitchhiking and the Post‑Neolithic Y‑Chromosome Bottleneck

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Talking Points

Recent interactions between the hosts and their guests.

279: Against the Uncritical Adoption of AI in Universities: LLMs, Chatbots, and Academic Integrity (Guest et al.)
Q: Is there a way to use AI that doesn't destroy science?
Yes, the hosts argue that with proper human oversight and adherence to ethical practices, AI can serve as a useful tool for knowledge translation, rather than production.
173: Bottlebrush Block Copolymer Shields Muscles and Prevents DMD Onset
Q: Does this synthetic polymer really prevent the disease progression?
Yes, in the study, early treatment with the polymer completely stopped the spike in muscle damage markers in the treated mice.
173: Bottlebrush Block Copolymer Shields Muscles and Prevents DMD Onset
Q: What if we could patch the damaged membranes with a synthetic molecule?
Using a synthetic polymer, muscle membranes can be stabilized effectively, demonstrating a new treatment approach for DMD.
133: Culture-Independent Meta‑Pangenomics Reveals Gut Genome Links to Child Growth
Q: What were the main findings in relation to microbial diversity and childhood growth?
Children experiencing linear growth faltering exhibited higher microbial richness but also higher genome instability, linking microbial health to growth outcomes.
133: Culture-Independent Meta‑Pangenomics Reveals Gut Genome Links to Child Growth
Q: How did the research team improve upon previous methods of studying gut microbiomes?
They utilized culture-independent metapanogenomics and long-read sequencing to recover complete microbial genomes, allowing them to analyze genetic variations more effectively and in significant detail.

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Frequently Asked Questions About Base by Base

What is Base by Base about and what kind of topics does it cover?

This show centers on advances in genetics and genomics, with a strong emphasis on how new studies translate to clinical understanding. Episodes commonly unpack topics like biobank biases, polygenic risk scores, transcriptional and regulatory mechanisms, genome-wide association methods, and the practicalities of implementing genomic insights in healthcare. Across installments, the hosts tend to connect methodological nuances to real-world implications—ranging from diagnostic yield and disease risk prediction to ethical considerations and health equity—often highlighting innovative analytic techniques (e.g., weighting schemes, NLP in clinical data, and population-specific reference resources) and the challenges of translating cutting-edge res... more

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Base by Base launched a year ago and published 352 episodes to date. You can find more information about this podcast including rankings, audience demographics and engagement in our podcast database.

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What guests have appeared on Base by Base?

Recent guests on Base by Base include:

1. Jirko Kuhnisch
2. Kaneco Weaver
3. Ruby White
4. Christophe Pellefigues
5. Franca Ronchese
6. Olivier Lamiable
7. David Eccles
8. Research Team from Duke University

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