The Single-Cell World Podcast
The Single-Cell World Podcast

The Single-Cell World Podcast

Catia Moutinho

Overview
Episodes

Details

Welcome to the single-cell world podcast! I am Cátia Moutinho. Here, we disentangle single-cell technology. I will share with you my knowledge, tips, advice, and experiences concerning single-cell research and technology. It doesn’t matter what level of expertise you have in this field. If you are a scientist, this podcast is for you! Listen and learn about this new technology.

thesinglecellworld.substack.com

Recent Episodes

Ep. 59: Rethink What You Know About Chromium Single Cell
DEC 12, 2024
Ep. 59: Rethink What You Know About Chromium Single Cell
<p><a target="_blank" href="https://www.10xgenomics.com/">10x Genomics</a> is world-class for single cell sequencing technology. As the company continues to innovate and launch exciting new products, it can be challenging to stay up to date on the portfolio and technology, even for us experts. In this episode, I talk to <a target="_blank" href="https://www.10xgenomics.com/company/team/michael-schnall-levin">Michael Schnall-Levin</a>, Chief Technology Officer and Founding Scientist at 10x Genomics. He shares everything you need to know about their Chromium single cell sequencing solutions. We cover Chromium instruments, new GEM-X assays, pricing updates, and more.</p><p>Tune in now and get a clear idea of all the types of experiments that you can do using 10x Genomics technology.</p><p><strong>Other useful information:</strong></p><p>Use the links below to learn more about the 10x Genomics Chromium Single Cell portfolio and technology:</p><p>* <a target="_blank" href="https://www.10xgenomics.com/instruments/chromium-family">Chromium X Series instruments</a></p><p>* <a target="_blank" href="https://www.10xgenomics.com/platforms/chromium/technology#gem-x">Chromium GEM-X technology</a></p><p>* <a target="_blank" href="https://www.10xgenomics.com/platforms/chromium/technology#multiplexing">Chromium GEM-X multiplexing</a></p><p><strong>Chromium Single Cell portfolio of assays.</strong></p><p><strong><em>Active links below the table 👇🏻</em></strong></p><p>*Epi products are the same as the legacy products but now have a new name. </p><p>* <a target="_blank" href="https://www.10xgenomics.com/products/flex-gene-expression">GEM-X Flex Gene Expression</a></p><p>* <a target="_blank" href="https://www.10xgenomics.com/products/universal-three-prime-gene-expression">GEM-X Universal 3' Gene Expression</a></p><p>* <a target="_blank" href="https://www.10xgenomics.com/products/universal-five-prime-gene-expression">GEM-X Universal 5' Gene Expression</a></p><p>* <a target="_blank" href="https://www.10xgenomics.com/products/epi-atac">Next GEM Epi ATAC</a></p><p>* <a target="_blank" href="https://www.10xgenomics.com/products/epi-multiome">Next GEM Epi Multiome ATAC + Gene Expression</a></p><p>🎧 Listen Now! </p> <br/><br/>This is a public episode. If you would like to discuss this with other subscribers or get access to bonus episodes, visit <a href="https://thesinglecellworld.substack.com?utm_medium=podcast&#38;utm_campaign=CTA_1">thesinglecellworld.substack.com</a>
play-circle
46 MIN
Ep. 58: TileDB-SOMA - Scalable Cloud Storage for Single-Cell
DEC 5, 2024
Ep. 58: TileDB-SOMA - Scalable Cloud Storage for Single-Cell
<p><a target="_blank" href="https://tiledb.com/">TileDB</a> software is transforming how scientists manage and analyze data. This includes single-cell omics data. In this episode, <a target="_blank" href="https://www.linkedin.com/in/%F0%9F%8E%AF-ming-tommy-tang-40650014/">Tommy Tang</a> and I talk to <a target="_blank" href="https://www.linkedin.com/in/aaronwolen/">Aaron Wolen</a>, Principal Software Engineer at TileDB, to explore the unique capabilities of <a target="_blank" href="https://tiledb.com/open-source/life-sciences/">TileDB-SOMA</a>. Aaron breaks down how this specific software addresses the complexities of single-cell sequencing data, offering robust data management, streamlined workflows, and scalable analysis tools tailored to any needs. We discuss its core features, real-world applications, and the transformative impact it has on accelerating scientific discovery in single-cell genomics research.</p><p>Tune in now to learn how TileDB-SOMA can help streamline your research and unlock new possibilities in data analysis!</p><p>A big thank you to<a target="_blank" href="https://www.linkedin.com/in/kristina-leblanc-5aa26787/"> Kristina LeBlanc</a>, Vice President at <a target="_blank" href="https://notablypr.com/">Notably</a>, who reached out to TSCW team and made this episode happen.</p><p><strong>Usefull links:</strong></p><p>* <a target="_blank" href="https://cloud.tiledb.com/academy/structure/life-sciences/single-cell/">TileDB Academy for Single-Cell</a></p><p>* <a target="_blank" href="https://tiledb.com/blog/tiledb-101-single-cell">TileDB blog post about single-cell</a></p><p>* <a target="_blank" href="https://lp.tiledb.com/product/spatial-transcriptomics">Power Spatial Data with TileDB</a></p><p></p> <br/><br/>This is a public episode. If you would like to discuss this with other subscribers or get access to bonus episodes, visit <a href="https://thesinglecellworld.substack.com?utm_medium=podcast&#38;utm_campaign=CTA_1">thesinglecellworld.substack.com</a>
play-circle
33 MIN
Ep. 57: EVOBYTE: Simple Solutions for Complex Biomedical Data
NOV 14, 2024
Ep. 57: EVOBYTE: Simple Solutions for Complex Biomedical Data
<p><strong>Hosted by</strong>: <a target="_blank" href="https://www.linkedin.com/in/catia-moutinho/">Catia Moutinho</a> & <a target="_blank" href="https://www.linkedin.com/in/%F0%9F%8E%AF-ming-tommy-tang-40650014/">Tommy Tang </a></p><p><strong>Guest:</strong> <a target="_blank" href="https://www.linkedin.com/in/jonathan-alles/">Jonathan Alles</a>, Founder of<a target="_blank" href="https://evo-byte.com/"> </a><a target="_blank" href="https://evo-byte.com/"><strong>EVO</strong></a><a target="_blank" href="https://evo-byte.com/">BYTE Digital Biology</a></p><p>In this episode, Jonathan tells us how <a target="_blank" href="https://evo-byte.com/"><strong>EVO</strong></a><a target="_blank" href="https://evo-byte.com/">BYTE</a>’s<a target="_blank" href="https://evo-byte.com/platform/"> EVO Data platform</a> is revolutionizing data management for research labs, with a focus on single-cell research. Our conversation covers <strong>EVO</strong>BYTE’s unique solutions, customization capabilities, practical applications, and the role of automation in bioinformatics workflows. Jonathan also shares his insights on the future of computational biology and advice for budding bioinformaticians.</p><p><strong>Links </strong>that may interest you:</p><p>* <a target="_blank" href="https://youtu.be/ViC7X3kb1w8?si=ftLKo9-OF7wino7i">Introducing EvoData Platform</a></p><p>* <a target="_blank" href="https://evo-byte.com/readstore/">ReadStore</a> is a platform for storing, managing, and integrating genomic data. It speeds up analysis and offers a secure way of managing and sharing FASTQ and NGS datasets. <a target="_blank" href="https://evo-byte.com/readstore-get-started/">30 DAY FREE TRIAL DEMO.</a></p><p>Enjoy the episode!</p> <br/><br/>This is a public episode. If you would like to discuss this with other subscribers or get access to bonus episodes, visit <a href="https://thesinglecellworld.substack.com?utm_medium=podcast&#38;utm_campaign=CTA_1">thesinglecellworld.substack.com</a>
play-circle
51 MIN
Ep. 56: scGET-seq. Studying chromatin at higher resolution
OCT 17, 2024
Ep. 56: scGET-seq. Studying chromatin at higher resolution
<p>In this podcast episode, I talk with <a target="_blank" href="https://www.linkedin.com/in/francesca-giannese-08490452/"><strong>Francesca Giannese</strong></a> about an exciting new method for studying chromatin at the single-cell level called <a target="_blank" href="https://pubmed.ncbi.nlm.nih.gov/34635836/"><strong>scGET-seq</strong></a><strong>.</strong> Unlike previous methods such as scATAC-seq, which only allow us to study open chromatin, <strong>scGET-seq</strong> provides insights into both open and closed chromatin. This breakthrough can lead to a deeper understanding of how chromatin structure impacts gene regulation in individual cells. Tune in to learn more about how <strong>scGET-seq</strong> works and its potential applications in research.</p><p>Contacts for support on scGET-seq implementation:</p><p>* <a target="_blank" href="https://x.com/FrancescaGi82"><strong>Francesca Giannese</strong></a> (wet-lab protocol implementation - enzyme requests)</p><p>* <a target="_blank" href="https://x.com/daweonline"><strong>Davide Cittaro</strong></a><a target="_blank" href="https://x.com/daweonline"> </a>(data analysis)</p><p>More information about scGET-seq</p><p>* <a target="_blank" href="https://en.wikipedia.org/wiki/ScGET-seq">scGET-seq Wikipedia</a> </p><p>* <a target="_blank" href="https://www.nature.com/articles/s41587-021-01031-1">Original Paper</a></p><p>Data Analysis</p><p>* <a target="_blank" href="https://star-protocols.cell.com/protocols/2563">Analyzing genomic and epigenetic profiles in single cells by hybrid transposase (scGET-seq)</a></p><p>* <a target="_blank" href="https://www.biorxiv.org/content/10.1101/2022.06.29.498092v1">Analysis and modeling of scGET-seq data</a> </p><p>Application</p><p>* <a target="_blank" href="https://www.biorxiv.org/content/10.1101/2023.09.18.558231v1">Cancer evolution (EMT in pancreatic cancer)</a></p><p></p> <br/><br/>This is a public episode. If you would like to discuss this with other subscribers or get access to bonus episodes, visit <a href="https://thesinglecellworld.substack.com?utm_medium=podcast&#38;utm_campaign=CTA_1">thesinglecellworld.substack.com</a>
play-circle
38 MIN
Ep. 55: Unlocking Single-Cell Secrets with Catia Moutinho
SEP 12, 2024
Ep. 55: Unlocking Single-Cell Secrets with Catia Moutinho
<p>This episode features the audio from an interview where <a target="_blank" href="https://www.linkedin.com/in/divya-dhasmana/"><strong>Divya Dhasman</strong></a><strong> </strong>from <a target="_blank" href="https://genowrite.com/"><strong>GenoWrite</strong></a> speaks with <a target="_blank" href="https://www.linkedin.com/in/catia-moutinho/"><strong>Catia Moutinho</strong></a>. They discuss the evolution of <a target="_blank" href="https://www.thesinglecellworld.com/"><strong>The Single-Cell World</strong></a> and explore the role of technology in advancing genomics. </p><p>Special thanks to <a target="_blank" href="https://www.linkedin.com/in/paul-naphtali-msc-58077948/"><strong>Paul Naphtali</strong></a> for making this interview possible. Catch the full interview<strong> </strong><a target="_blank" href="https://genowrite.com/unlocking-single-cell-secrets-with-catia-moutinho/"><strong>here</strong></a><strong>.</strong></p><p>Thanks to you for listen. Hit the ❤️ if you liked it and share it with your colleagues.</p> <br/><br/>This is a public episode. If you would like to discuss this with other subscribers or get access to bonus episodes, visit <a href="https://thesinglecellworld.substack.com?utm_medium=podcast&#38;utm_campaign=CTA_1">thesinglecellworld.substack.com</a>
play-circle
16 MIN