After 454 now the second try by Roche: Axelios.

Correction: the 5B flow cell will arrive for the NovaseqX(+), not for the Nextseq2000

Also:

PacBio makes sequencing cheaper: https://www.pacb.com/press_releases/pacbio-announces-major-advances-for-revio-and-vega-to-lower-genome-cost-and-expand-multiomic-capabilities/⁠

Roche about SBX: https://sequencing.roche.com/global/en/article-listing/sequencing-platform-technologies.html

Roche from a conference: https://www.youtube.com/watch?v=YN2meswiCiQ

Since 2018, West German Genome Center (⁠https://wggc.de/⁠) operates as the next generation sequencing facility and supports research in genomics & transcriptomics by providing expertise and sequencing services. WGGC is a part of the Next Generation Sequencing Competence Network (NGS-CN: ⁠https://ngs-kn.de/⁠) – network of NGS core facilities in Germany. Listen to our podcast and we're happy to receive your feedback&questions via Email (podcast[dot]explain[at]gmail[dot]com ).

License Notice

This podcast including all episodes, unless otherwise noted, is licensed under a ⁠⁠⁠⁠⁠Creative Commons Attribution 4.0 International License⁠⁠⁠⁠⁠.You are free to share, remix, and use this content as long as you give appropriate credit, provide a link to the license, and indicate if changes were made.

Attribution:

Podcast Title: Explain Podcast

Creators: Iuliia Novoselova, Daniel Rickert

Website: ⁠⁠⁠⁠⁠https://ngs-cn.de/explain-podcast/⁠

This time something different.

Sources:

https://www.23andme.com/privacy/

https://verbraucherschutzforum.berlin/2025-03-25/23andme-meldet-insolvenz-an-was-nutzer-jetzt-wissen-sollten-357738/

https://en.wikipedia.org/wiki/23andMe_data_leak

https://www.cshub.com/attacks/news/23andme-hacker-leaks-data

https://www.cbsnews.com/news/dna-privacy-at-home-tests-23andme-ancestrydna-sell-data-to-third-parties/

https://techcrunch.com/2025/03/24/23andme-faces-an-uncertain-future-so-does-your-genetic-data/

https://www.theverge.com/2024/9/13/24243986/23andme-settlement-dna-data-breach-lawsuit

https://newsroom.regeneron.com/news-releases/news-release-details/regeneron-enters-asset-purchase-agreement-acquire-23andmer-256/

The science of white blood cells, and much more

Chapters:

05:30 Immunology how?

22:05 22q11.2 deletion syndrome

34:30 Scientific collaboration

40:00 Data losses

50:00 Flip it!

53:00 outlook 2030

Links:

mini-immunology intro:

https://www.youtube.com/watch?v=k9QAyP3bYmc

22Q e. V. - zentraler Anlaufpunkt für Menschen mit Deletionssyndrom 22q11 oder Duplikationssyndrom 22q11 im deutschsprachigen Raum https://www.wirsind22q.de/aus-dem-verein/vorstand

Podcast for young immunologists from young immunologists https://theyoungimmunologist.buzzsprout.com/

Contact Nora here https://www.linkedin.com/in/nora-balzer-phd-253a767b

Some information about training courses and events https://www.immunology.org/traininghttps://dgfi.org/dgfi-en/academy-of-immunology/

Since 2018, West German Genome Center (⁠https://wggc.de/⁠) operates as the next generation sequencing facility and supports research in genomics & transcriptomics by providing expertise and sequencing services. WGGC is a part of the Next Generation Sequencing Competence Network (NGS-CN: ⁠https://ngs-kn.de/⁠) – network of NGS core facilities in Germany. Listen to our podcast and we're happy to receive your feedback&questions via Email (podcast[dot]explain[at]gmail[dot]com ).

License Notice

This podcast including all episodes, unless otherwise noted, is licensed under a ⁠⁠⁠⁠⁠Creative Commons Attribution 4.0 International License⁠⁠⁠⁠⁠.You are free to share, remix, and use this content as long as you give appropriate credit, provide a link to the license, and indicate if changes were made.

Attribution:

Podcast Title: Explain Podcast

Creators: Iuliia Novoselova, Daniel Rickert

Website: ⁠⁠⁠⁠⁠https://ngs-cn.de/explain-podcast/⁠

Sharing a flowcell, reinvented

Chapters:

- 00:00 usegalaxy.org

- 07:55 Singular Genomics start

- 21:55 Max Reads

- 29:40 DNA Structure / ATAC-seq

Setup galaxy on local hardware:

https://galaxyproject.org/admin/get-galaxy/

G4 is competing with Illumina:

https://www.genengnews.com/topics/omics/fast-and-flexible-singulars-g4-takes-aim-at-illuminas-sequencing-superiority/

Singulars chemistry is one of many:

https://www.nature.com/articles/d41586-023-00512-4

How max reads works:

https://techwriting.singulargenomics.com/max-read/Max-Read-Kit-User-Guide-600026.pdf

Small intro to DNA Structures:

https://en.wikipedia.org/wiki/Nucleic_acid_quaternary_structure

Intro to ATAC-seq:

https://www.nature.com/articles/s41596-022-00692-9

PS:

As of 2025, Singular does not advertise DNA/RNA Sequencing on their G4 anymore, but shifted to spatial data, including their G4X: https://www.singulargenomics.com/

Since 2018, West German Genome Center (⁠https://wggc.de/⁠) operates as the next generation sequencing facility and supports research in genomics & transcriptomics by providing expertise and sequencing services. WGGC is a part of the Next Generation Sequencing Competence Network (NGS-CN: ⁠https://ngs-kn.de/⁠) – network of NGS core facilities in Germany. Listen to our podcast and we're happy to receive your feedback&questions via Email (podcast[dot]explain[at]gmail[dot]com ).

License Notice

This podcast including all episodes, unless otherwise noted, is licensed under a ⁠⁠⁠⁠⁠Creative Commons Attribution 4.0 International License⁠⁠⁠⁠⁠.You are free to share, remix, and use this content as long as you give appropriate credit, provide a link to the license, and indicate if changes were made.

Attribution:

Podcast Title: Explain Podcast

Creators: Iuliia Novoselova, Daniel Rickert

Website: ⁠⁠⁠⁠⁠https://ngs-cn.de/explain-podcast/⁠

Spinnin' bases on wafers to do mostly natural SBS

Chapters:

- 00:00 Ultima ePCR with beads

- 07:10 Spinning the wafer, nucleotides, no blocking

- 14:30 Ultima ppmSeq + Element UltraQ

- 25:30 How Element UltraQ was born

- 30:30 snakemake, cromwell, nextflow

- 36:50 ncRNA

Ultimas homepage: https://www.ultimagenomics.com/

Nature paper with the chemistry: https://www.nature.com/articles/s41587-022-01452-6

Elements UltraQ chemistry:

https://www.elementbiosciences.com/cloudbreak-ultraq-enhanced-sequencing-accuracy-when-precision-matters-most

Snakemake: https://snakemake.readthedocs.io/en/stable/

Nextflow: https://www.nextflow.io/docs/latest/index.html

Cromwell: https://cromwell.readthedocs.io/en/stable/

Small overview of not all ncRNA types: https://microbenotes.com/types-of-rna/

Since 2018, West German Genome Center (https://wggc.de/) operates as the next generation sequencing facility and supports research in genomics & transcriptomics by providing expertise and sequencing services. WGGC is a part of the Next Generation Sequencing Competence Network (NGS-CN: https://ngs-kn.de/) – network of NGS core facilities in Germany. Listen to our podcast and we're happy to receive your feedback&questions via Email (podcast[dot]explain[at]gmail[dot]com ).

License Notice

This podcast including all episodes, unless otherwise noted, is licensed under a ⁠⁠⁠⁠Creative Commons Attribution 4.0 International License⁠⁠⁠⁠.You are free to share, remix, and use this content as long as you give appropriate credit, provide a link to the license, and indicate if changes were made.

Attribution:

Podcast Title: Explain Podcast

Creators: Iuliia Novoselova, Daniel Rickert

Website: ⁠⁠⁠⁠https://ngs-cn.de/explain-podcast/⁠

Because sometimes a jellyfish prevents quenching

Chapters:

01:00 - XLeap update from Illumina

08:00 - Avidites start, splitting the problems

13:20 - In-depth comparison to Illumina

22:00 - Element summary

23:30 - Bioinformatics tools: Jellyfish, KAT

25:00 - QuickGen: GWAS

Illumina about their XLeap: https://www.illumina.com/science/genomics-research/articles/data-quality-q-scores.html

Sandiegomics about element: https://sandiegomics.com/element-beats-illumina-to-the-200-genome/

Nature paper about the chemistry: https://www.nature.com/articles/s41587-023-01750-7

Jellyfish for k-mer counting: https://github.com/gmarcais/Jellyfish

GWAS Catalog: very nice data collection: https://www.ebi.ac.uk/gwas/diagram

Correcting population-based GWAS bias: https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1011242

Since 2018, West German Genome Center (https://wggc.de/) operates as the next generation sequencing facility and supports research in genomics & transcriptomics by providing expertise and sequencing services. WGGC is a part of the Next Generation Sequencing Competence Network (NGS-CN: https://ngs-kn.de/) - network of NGS core facilities in Germany. Listen to our podcast and we're happy to receive your feedback&questions via Email (podcast[dot]explain[at]gmail[dot]com ).

License Notice

This podcast including all episodes, unless otherwise noted, is licensed under a ⁠⁠⁠⁠Creative Commons Attribution 4.0 International License⁠⁠⁠⁠.You are free to share, remix, and use this content as long as you give appropriate credit, provide a link to the license, and indicate if changes were made.

Attribution:

Podcast Title: Explain Podcast

Creators: Iuliia Novoselova, Daniel Rickert

Website: ⁠⁠⁠⁠https://ngs-cn.de/explain-podcast/⁠

Because only one type of nucleotide is not complicated enough

Chapters:

01:35 Introducing old problems

15:30 More Phred, more better

34:40 QuickGen: genetic testing

47:40 Bioinformatics tools: samtools

PacBio ONSO Specs: https://www.pacb.com/wp-content/uploads/Onso-specification-sheet.pdf

SBB explained by PacBio: https://www.pacb.com/blog/sbb-sequencing/

Why higher quality is better: https://pmc.ncbi.nlm.nih.gov/articles/PMC11331594/

Short read sequencing market heating up: https://www.nature.com/articles/s41587-022-01632-4

SBB for visual learners: https://www.youtube.com/watch?v=i_mSaNBOVmQ

Since 2018, West German Genome Center (https://wggc.de/)operates as the next generation sequencing facility and supports research in genomics & transcriptomics by providing expertise and sequencing services. WGGC is a part of the Next Generation Sequencing Competence Network (NGS-CN: https://ngs-kn.de/) - network of NGS core facilities in Germany. Listen to our podcast and we're happy to receive your feedback&questions via Email (podcast[dot]explain[at]gmail[dot]com ).

License Notice

This podcast including all episodes, unless otherwise noted, is licensed under a ⁠⁠⁠⁠Creative Commons Attribution 4.0 International License⁠⁠⁠⁠.You are free to share, remix, and use this content as long as you give appropriate credit, provide a link to the license, and indicate if changes were made.

Attribution:

Podcast Title: Explain Podcast

Creators: Iuliia Novoselova, Daniel Rickert

Website: ⁠⁠⁠⁠https://ngs-cn.de/explain-podcast/⁠

Mixing up long and cheap

Chapters:

00:00:00 Intro

00:03:30 Florians history

00:13:50 Q&A Ressources for Bioinformatics

00:27:00 Long-read-tools.org

00:35:42 ONT || PacBio

00:57:00 Storage

01:09:00 Outro

Up-to-date, raw prices:https://albertvilella.substack.com/p/march-2024-ngsspecs-update

Dovetail comparing the two long-read technologies:https://dovetailbiopartners.com/2023/08/10/pacbio-vs-nanopore-unraveling-the-sequencing-odyssey-in-life-sciences/

Comparing PacBios old CLRs to ONT:https://academic.oup.com/g3journal/article/12/11/jkac192/6651842?login=true

RNA Performance comparison, wonderful read:https://www.biorxiv.org/content/10.1101/2023.07.25.550582v1.full.pdf+html

Integras 0.02$:https://www.integra-biosciences.com/united-states/en/blog/article/short-read-vs-long-read-sequencing

Since 2018, West German Genome Center (https://wggc.de/) operates as the next generation sequencing facility and supports research in genomics & transcriptomics by providing expertise and sequencing services. WGGC is a part of the Next Generation Sequencing Competence Network (NGS-CN: https://ngs-kn.de/) - network of NGS core facilities in Germany. Listen to our podcast and we're happy to receive your feedback&questions via Email (podcast[dot]explain[at]gmail[dot]com ).

Our podcast is an outreach activity within the national genomics facility "West German Genome Center" funded by the DFG (https://www.dfg.de/) (No. 407493903)

License Notice

This podcast including all episodes, unless otherwise noted, is licensed under a ⁠⁠⁠Creative Commons Attribution 4.0 International License⁠⁠⁠.You are free to share, remix, and use this content as long as you give appropriate credit, provide a link to the license, and indicate if changes were made.

Attribution:

Podcast Title: Explain Podcast

Creators: Iuliia Novoselova, Daniel Rickert

Website: ⁠⁠⁠https://ngs-cn.de/explain-podcast/⁠