#PanGenomes

Ali Raza

@aliraza6.bsky.social

1 month ago

Two-way thick black arrows show the influence or interaction, including (1) arrows from the center to the challenges signify how super-pangenomes address/amplify these challenges and (2) line-with-bars from challenges to the center suggest how these challenges impact/hinder the adoption of super-pangenomes. Circular colored lines highlight the interplay between challenges, as shown by the colored text. Created with BioRender.com.

Key challenges in adopting super #pangenomes as new reference #genomes in research and #breeding

🔗 www.nature.com/articles/s44...

@plantevolution.bsky.social @planteditors.bsky.social @scinews.bsky.social @sebiology.bsky.social @plantsciencedbg.bsky.social @natgenet.nature.com @cropxr.bsky.social

Rob Waterhouse

@rmwaterhouse.bsky.social

3 months ago

Programme - SMBE 2026 - Copenhagen Denmark SMBE 2026 Programme Days Hours Minutes Seconds CONFERENCE PROGRAMME This programme overview presents the preliminary conference program, offering a general outline of the planned sessions and activiti...

Join us at #SMBE2026 in Copenhagen this summer!

🔵 With @ergabiodiv.bsky.social & @official-smbe.bsky.social

🟣 Symposium 21 | From genomic graphs to evolutionary insights: standardising #pangenomes for population inference

🟢 smbe2026.org/programme/
#biodiversity #genomics

Botanical Society of America

@botsocamerica.bsky.social

3 months ago

Scalesia gordilloi, part of a large adaptive radiation of Asteraceae in the Galápagos.

Check out this new #AJB On the Nature of Things essay!

#Pangenomes as a framework for adaptive radiation, speciation & adaptation

By @nicolo-tellini.bsky.social , Ole Tørresen, David Edwards, Loren Rieseberg, Kjetill Jakobsen & José Cerca

doi.org/10.1002/ajb2... #botany #plantscience #evolution

Javier Santoyo

@jsantoyo.bsky.social

3 months ago

Pangenomic structural variant patterns reflect evolutionary diversification in Brassica napus. #StructuralVariants #Pangenomes #BrasicaNapusGenome #PlantGenomics #Bioinformatics #GenomeBiology 🧪🧬 🖥️
link.springer.com/article/10.1...

Javier Santoyo

@jsantoyo.bsky.social

3 months ago

The value of structural variants to conservation genomics in the pangenome era. #StructuralVariants #SVs #Bioinformatics #Genomics #ConservationGenomics #Pangenomes #JournalOfHeredity
academic.oup.com/jhered/advan...

Novogene Europe

@novogene-europe.bsky.social

3 months ago

Explore how pan-genome studies are improving soybean breeding research. Gain insights into genetic diversity and key traits driving agricultural advancements.

Read more: https://bit.ly/49QL2Fe

#PanGenomes #SoybeanResearch #CropImprovement #Genomics #Agrigenomics

Ensembl

@ensembl.org

4 months ago

Join us tomorrow to explore Ensembl resources for pangenomes! Leanne Haggerty is presenting on Ensembl annotation for human, model organism, livestock & crop plant pangenomes.

Free registration: zurl.co/3sSUJ 

Full series:zurl.co/XrVdc
#Pangenomes #Ensembl

Ensembl

@ensembl.org

4 months ago

Choose your human genome reference wisely - Nature Methods Scientists can choose between multiple human genome references, and a pangenome reference is coming. Deciding what to use when is not quite straightforward.

As new human assemblies become available on beta.ensembl.org - which human reference genome will you choose? This article explores the question with insights from Ensembl’s own Fergal Martin - www.nature.com/articles/s41...

#HumanGenomics #Pangenomes #ReferenceGenomes

PlantEvolution 🌱🌾

@plantevolution.bsky.social

4 months ago

1/2 Want to become up to date with pangenomes and genome graphs and their history? Check out this fantastic review by @zbao.bsky.social!

Complexity welcome: Pangenome graphs for comprehensive population genomics
#pangenomes #plantscience #genomegraphs
www.cambridge.org/core/journal...

Javier Santoyo

@jsantoyo.bsky.social

4 months ago

Movi 2: Fast and Space-Efficient Queries on Pangenomes. #Pangenomes #SequenceQueries #Genomics #Bioinformatics @biorxiv-genomic.bsky.social 🧬 🖥️
www.biorxiv.org/content/10.1...

ERGA - European Reference Genome Atlas

@ergabiodiv.bsky.social

4 months ago

💡 #KnowledgeHighlight | Pangenome Graphs - course by The Gulbenkian Training Programme in Bioinformatics
gtpb.github.io/CPANG22/

Explore open-access training materials in the ERGA #KnowledgeHub ➡️ knowledge.erga-biodiversity.eu
#pangenomes

Javier Santoyo

@jsantoyo.bsky.social

4 months ago

From genotype to phenotype with 1,086 near telomere-to-telomere yeast genomes. #YeastGenomes #Pangenomes #GeneticVariation #StructuralVariants #LongRead #Sequencing @nature.com 🧬 🖥️
www.nature.com/articles/s41...

Giuseppe D'Auria

@gdauria.bsky.social

4 months ago

The focus of this second meeting on #pangenomes is on the relevance of the prokaryotic pangenome for human, animal and environmental health as part of the #OneHealth context, tackling the prevention and treatment of #infectious #diseases.

Novogene Europe

@novogene-europe.bsky.social

5 months ago

Explore how pan-genome studies are improving soybean breeding research. Gain insights into genetic diversity and key traits driving agricultural advancements.

Read more: https://bit.ly/49QL2Fe

#PanGenomes #SoybeanResearch #CropImprovement #Genomics #Agrigenomics

EMBL-EBI Training

@training.ebi.embl.org

5 months ago

Graphic detailing information for the webinar "Evolution of the accessory genome": the webinar will run on 8 October 2025, 14:30 - 15:30 BST. The speaker is Hsueh-Chien (Raymond) Cheng, from the Wellcome Sanger Institute. A photo of the speaker is displayed close to his name.

Join us next week for the second #webinar in our #pangenomes series!

We will talk about the evolution of the accessory genome in bacteria, and how it plays an essential role in microbial diversity and adaptation.

Registration is free but essential: lnkd.in/e59HTpr8

Javier Santoyo

@jsantoyo.bsky.social

5 months ago

Pangenome-based identification of cryptic pathogenic variants in undiagnosed rare disease patients. #GeneticVariants #PathogenicVariants #Pangenomes #LongRead #Sequencing @medrxivpreprint.bsky.social 🧬 🖥️
www.medrxiv.org/content/10.1...

Javier Santoyo

@jsantoyo.bsky.social

6 months ago

Finding easy regions for short-read variant calling from pangenome data. #ShortReads #Pangenomes #Bioinformatics #Genomics @gigascience.bsky.social 🧬 🖥️
academic.oup.com/gigascience/...

Elin Videvall

@elinvidevall.bsky.social

6 months ago

Thanks for sharing! Would have liked to see your talk! The microbial #pangenomes session was my favorite besides the #microbiome one.

Javier Santoyo

@jsantoyo.bsky.social

6 months ago

Pangenome analysis of transposable element insertion polymorphisms reveals features underlying cold tolerance in rice. #TransposableElements #TE #Pangenomes #RiceGenomes @natcomms.nature.com
www.nature.com/articles/s41...

Javier Santoyo

@jsantoyo.bsky.social

6 months ago

Synteny and linkage decay in bacteriophage pangenomes. #Bacteriophages #Pangenomes @biorxiv-genomic.bsky.social
www.biorxiv.org/content/10.1...

Javier Santoyo

@jsantoyo.bsky.social

6 months ago

Phased genome assemblies and pangenome graphs of human populations of Japan and Saudi Arabia - Scientific Data Scientific Data - Phased genome assemblies and pangenome graphs of human populations of Japan and Saudi Arabia

Phased genome assemblies and pangenome graphs of human populations of Japan and Saudi Arabia. #PhasedGenomes #Pangenomes #HumanPopulations #ScientificData 🧬
www.nature.com/articles/s41...

K.D. Murray

@kdm9.bsky.social

7 months ago

Pangenomic context reveals the extent of intraspecific plant NLR evolution Individual- and population-level diversity is required for pathogen defense by nucleotide-binding site leucine-rich repeat (NLR) proteins. Teasdale et al. leverage annotated, divergent A. thaliana gen...

Happy to be able to finally share our NLR pangenome paper, out now in CHM.

"Pangenomic context reveals the extent of intraspecific plant NLR evolution"

www.cell.com/cell-host-mi...

#plantscience #plantimmunity #pangenomes #science #nlr

Javier Santoyo

@jsantoyo.bsky.social

7 months ago

Building pangenomes for domesticated and wild tree species: genomic complexity and strategies. #Pangenomes #TreesGenomes @biorxiv-bioinfo.bsky.social
www.biorxiv.org/content/10.1...

Novogene Europe

@novogene-europe.bsky.social

7 months ago

Explore how pan-genome studies are improving soybean breeding research. Gain insights into genetic diversity and key traits driving agricultural advancements.

Read more: bit.ly/49QL2Fe

#PanGenomes #SoybeanResearch #CropImprovement #Genomics #Agrigenomics

Javier Santoyo

@jsantoyo.bsky.social

8 months ago

PangenePro: an automated pipeline for rapid identification and classification of gene family members. #Pangenomes #GeneClassification #Genomics #Bioinformatics @bioinfoadv.bsky.social 🧬 🖥️
academic.oup.com/bioinformati...

Earlham Institute

@earlhaminst.bsky.social

8 months ago

Pangenome annotation opens up a multiverse of genes Researchers at the Earlham Institute are gaining deeper insights into genetic diversity with pangenome annotation.

💬 “When you compare different systems of annotation, you can end up accidentally inferring results that are technical, not biological.”

Scientists at Earlham Institute are developing #annotation tools to support higher-quality and more comparable data for #pangenomes.

🔗 buff.ly/TMOWcG8

🖥️🧬

Javier Santoyo

@jsantoyo.bsky.social

8 months ago

PanVA: a visual analytics tool for pangenomic variant analysis. #Pangenomes #VariantAnalysis #DataVisualization #Genomics #Bioinformatics @biorxiv-bioinfo.bsky.social‬ 🧬 🖥️
www.biorxiv.org/content/10.1...

Javier Santoyo

@jsantoyo.bsky.social

8 months ago

Pangenome-Informed Language Models for Synthetic Genome Sequence Generation. #LLMs #Pangenomes #SyntheticGenomeSequences #Genomics #Bioinformatics ‪@biorxiv-bioinfo.bsky.social‬
www.biorxiv.org/content/10.1...

Javier Santoyo

@jsantoyo.bsky.social

8 months ago

Mumemto: efficient maximal matching across pangenomes - Genome Biology Aligning genomes into common coordinates is central to pangenome construction, though computationally expensive. Multi-sequence maximal unique matches (multi-MUMs) help to frame and solve the…

Mumemto: efficient maximal matching across pangenomes. #Pangenomes #VisualizationTool #PangenomeDiagnostic #Bioinformatics #Genomics #GenomeBiology
genomebiology.biomedcentral.com/articles/10....

Earlham Institute

@earlhaminst.bsky.social

9 months ago

What’s the power of a pangenome? Here at the Earlham Institute a lot of people are very excited about pangenomes. But what are they? And how will they change genetics?

🟡 #Pangenomes capture far more detail of a species' genetic diversity offering biologists a powerful tool to understand variation, evolution, disease, and much more. 🧬🌱💻