Structural Variant Aware Identity-by-Descent Detection on Pangenome Graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764670v1
November 6, 2026 at 9:31 PM
Structural Variant Aware Identity-by-Descent Detection on Pangenome Graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764670v1
Universitat Politecnica de Catalunya is hiring:
Technician in Algorithms and Data Structures for Pangenome Analysis
#computerscience #biology
Technician in Algorithms and Data Structures for Pangenome Analysis
#computerscience #biology
November 8, 2026 at 4:00 AM
Universitat Politecnica de Catalunya is hiring:
Technician in Algorithms and Data Structures for Pangenome Analysis
#computerscience #biology
Technician in Algorithms and Data Structures for Pangenome Analysis
#computerscience #biology
Somatic structural variation discovery on cancer pangenome graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764632v1
November 6, 2026 at 10:32 PM
Somatic structural variation discovery on cancer pangenome graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764632v1
Somatic structural variation discovery on cancer pangenome graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764632v1
November 6, 2026 at 10:32 PM
Somatic structural variation discovery on cancer pangenome graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764632v1
A haplotype-resolved lychee pangenome uncovers structural and haplotype variations associated with flowering time divergence and fruit sugar composition #research #MolecularPlant cell.com/molecular-pl...
November 5, 2026 at 7:50 AM
A haplotype-resolved lychee pangenome uncovers structural and haplotype variations associated with flowering time divergence and fruit sugar composition #research #MolecularPlant cell.com/molecular-pl...
This looks like it could be something fun for maize or other pangenome folks looking at structural variation to play around with
☕ Got multiple genome assemblies to annotate? Want consistent TE annotations and easy comparisons across assemblies — from within species to across kingdoms?
Time for ParTEA! 🫖
The Earl Grey ParTEA preprint is now online! 🎉 www.biorxiv.org/content/10.6...
#TEworldwide #TEsky #bioinformatics
Time for ParTEA! 🫖
The Earl Grey ParTEA preprint is now online! 🎉 www.biorxiv.org/content/10.6...
#TEworldwide #TEsky #bioinformatics
Earl Grey ParTEA: scalable, consistent transposable element annotation from pangenomes to deep phylogenetic scopes
Transposable elements (TEs) are major drivers of genomic diversity, yet understanding their mobility and functional impact requires their accurate description in genomes. TE annotation is still typica...
www.biorxiv.org
November 6, 2026 at 12:11 PM
This looks like it could be something fun for maize or other pangenome folks looking at structural variation to play around with
The new issue of @genomeresearch.bsky.social is now live. Follow the link to new research on genetic and environmental determinants of health, the SwinePan pig pangenome platform, and more! tinyurl.com/Genome-Res-3...
November 4, 2026 at 1:26 AM
The new issue of @genomeresearch.bsky.social is now live. Follow the link to new research on genetic and environmental determinants of health, the SwinePan pig pangenome platform, and more! tinyurl.com/Genome-Res-3...
RRIDs were included in this in Cell Genomics paper. We value the author's support of reproducibility. #RRID #reproducibility #OpenScience
Leveraging human pangenome for improved somatic variant detection
Read the full paper: Leveraging human pangenome for improved somatic variant detection
doi.org
November 8, 2026 at 8:01 AM
RRIDs were included in this in Cell Genomics paper. We value the author's support of reproducibility. #RRID #reproducibility #OpenScience
Explore the slides from HPRC’s #ASHG2026 workshop, “The Human Pangenome Release 3: Data, Tools, Applications, and Ethics,” featuring an overview of the resources, tools, and research applications shared during the session.
View the slides: drive.google.com/file/d/1pv3j...
View the slides: drive.google.com/file/d/1pv3j...
November 4, 2026 at 7:12 PM
Explore the slides from HPRC’s #ASHG2026 workshop, “The Human Pangenome Release 3: Data, Tools, Applications, and Ethics,” featuring an overview of the resources, tools, and research applications shared during the session.
View the slides: drive.google.com/file/d/1pv3j...
View the slides: drive.google.com/file/d/1pv3j...
Researchers out of London have just put together the first-ever European ash pangenome.
Using this, scientists can identify genes associated with ash dieback resistance and eventually EAB resistance as it spreads across Europe.
Read more: phys.org/news/2026-09...
#Entomology #Entomology 🌎🧪🍁
Using this, scientists can identify genes associated with ash dieback resistance and eventually EAB resistance as it spreads across Europe.
Read more: phys.org/news/2026-09...
#Entomology #Entomology 🌎🧪🍁
European ash pangenome could help researchers breed a generation of trees resistant to ash dieback
In a study published in the journal Nature Communications, researchers from the Royal Botanic Gardens, Kew, Forest Research and collaborating organizations present the first-ever European ash (Fraxinu...
phys.org
November 2, 2026 at 7:54 PM
Researchers out of London have just put together the first-ever European ash pangenome.
Using this, scientists can identify genes associated with ash dieback resistance and eventually EAB resistance as it spreads across Europe.
Read more: phys.org/news/2026-09...
#Entomology #Entomology 🌎🧪🍁
Using this, scientists can identify genes associated with ash dieback resistance and eventually EAB resistance as it spreads across Europe.
Read more: phys.org/news/2026-09...
#Entomology #Entomology 🌎🧪🍁
Structural Variant Aware Identity-by-Descent Detection on Pangenome Graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764670v1
November 6, 2026 at 9:31 PM
Structural Variant Aware Identity-by-Descent Detection on Pangenome Graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764670v1
Hub labeling makes exact distance calculation practical for large human pangenome graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764665v1
November 6, 2026 at 8:46 PM
Hub labeling makes exact distance calculation practical for large human pangenome graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764665v1
Hub labeling makes exact distance calculation practical for large human pangenome graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764665v1
November 6, 2026 at 8:46 PM
Hub labeling makes exact distance calculation practical for large human pangenome graphs https://www.biorxiv.org/content/10.64898/2026.11.05.764665v1
Job ID: 30267230021
Extract: Technician role designing and implementing algorithms and data structures for pangenome and variation graph analysis in C/C++, Python, and parallel environments.
Extract: Technician role designing and implementing algorithms and data structures for pangenome and variation graph analysis in C/C++, Python, and parallel environments.
November 8, 2026 at 4:00 AM
Job ID: 30267230021
Extract: Technician role designing and implementing algorithms and data structures for pangenome and variation graph analysis in C/C++, Python, and parallel environments.
Extract: Technician role designing and implementing algorithms and data structures for pangenome and variation graph analysis in C/C++, Python, and parallel environments.
Alitzel L\'opez S\'anchez, Jiazhen Leng, Natasha Ivanova, Lingling Jin, David Sankoff: Pangenome Peeling: Decomposing Weighted Adjacencies into Path-Forest Genomes https://arxiv.org/abs/2611.09533 https://arxiv.org/pdf/2611.09533 https://arxiv.org/html/2611.09533
November 9, 2026 at 6:40 AM
Alitzel L\'opez S\'anchez, Jiazhen Leng, Natasha Ivanova, Lingling Jin, David Sankoff: Pangenome Peeling: Decomposing Weighted Adjacencies into Path-Forest Genomes https://arxiv.org/abs/2611.09533 https://arxiv.org/pdf/2611.09533 https://arxiv.org/html/2611.09533
Daniel also highlights the eukaryotic proteins and their Asgard archaeal homologues
See their @natmicrobiol.nature.com
www.nature.com/articles/s41...
#KNVMfall2026
See their @natmicrobiol.nature.com
www.nature.com/articles/s41...
#KNVMfall2026
Prediction of eukaryotic cellular complexity in Asgard archaea using structural modelling - Nature Microbiology
A structural catalogue of the Asgard archaeal pangenome reveals hundreds of eukaryotic-like proteins that suggest a higher degree of cellular complexity in the archaeal ancestor of eukaryotes.
www.nature.com
November 6, 2026 at 10:39 AM
Daniel also highlights the eukaryotic proteins and their Asgard archaeal homologues
See their @natmicrobiol.nature.com
www.nature.com/articles/s41...
#KNVMfall2026
See their @natmicrobiol.nature.com
www.nature.com/articles/s41...
#KNVMfall2026
Graph-based pangenome analysis uncovers structural and functional impacts of allopolyploidization events
Science Advances
www.science.org/doi/10.1126/...
Science Advances
www.science.org/doi/10.1126/...
Graph-based pangenome analysis uncovers structural and functional impacts of allopolyploidization events
The emergence of graph pangenomes has advanced the study of structural variants (SVs) across diverse species, yet the impact of complex ploidy on SV landscapes remains poorly explored. Brettanomyces b...
www.science.org
November 4, 2026 at 4:10 AM
Graph-based pangenome analysis uncovers structural and functional impacts of allopolyploidization events
Science Advances
www.science.org/doi/10.1126/...
Science Advances
www.science.org/doi/10.1126/...
Twenty-five new microsporidian genomes: Insights into ploidy, reproduction, and the group's pangenome https://www.biorxiv.org/content/10.64898/2026.10.30.762710v1
November 2, 2026 at 2:31 AM
Twenty-five new microsporidian genomes: Insights into ploidy, reproduction, and the group's pangenome https://www.biorxiv.org/content/10.64898/2026.10.30.762710v1
If it's just 8x for diploid, then it could be quite tough since there are only 4x per haplotype. github.com/zjjbuqi/HiFi... may fit your data, but I've never tried this myself (skeptical of repetitive plant genome applications 🌽). Pangenome-based imputation seems to make more sense to me
GitHub - zjjbuqi/HiFiCCL: A Tool for low Coverage HiFi Data Assembly
A Tool for low Coverage HiFi Data Assembly. Contribute to zjjbuqi/HiFiCCL development by creating an account on GitHub.
github.com
November 5, 2026 at 10:19 PM
If it's just 8x for diploid, then it could be quite tough since there are only 4x per haplotype. github.com/zjjbuqi/HiFi... may fit your data, but I've never tried this myself (skeptical of repetitive plant genome applications 🌽). Pangenome-based imputation seems to make more sense to me
Twenty-five new microsporidian genomes: Insights into ploidy, reproduction, and the group's pangenome https://www.biorxiv.org/content/10.64898/2026.10.30.762710v1
November 2, 2026 at 2:31 AM
Twenty-five new microsporidian genomes: Insights into ploidy, reproduction, and the group's pangenome https://www.biorxiv.org/content/10.64898/2026.10.30.762710v1
An Icelandic pangenome reference | Nature
https://www.byteseu.com/2489658/
Pangenome reference The pangenome reference used in this study is a sequence graph augmented with phased small variants. It is stored in two data files: a sequence graph in reference rGFA format16 containing the …
https://www.byteseu.com/2489658/
Pangenome reference The pangenome reference used in this study is a sequence graph augmented with phased small variants. It is stored in two data files: a sequence graph in reference rGFA format16 containing the …
An Icelandic pangenome reference | Nature - Bytes Europe
The pangenome reference used in this study is a sequence graph augmented with phased small variants. It is stored in two data files: a sequence graph in
www.byteseu.com
November 1, 2026 at 7:39 AM
An Icelandic pangenome reference | Nature
https://www.byteseu.com/2489658/
Pangenome reference The pangenome reference used in this study is a sequence graph augmented with phased small variants. It is stored in two data files: a sequence graph in reference rGFA format16 containing the …
https://www.byteseu.com/2489658/
Pangenome reference The pangenome reference used in this study is a sequence graph augmented with phased small variants. It is stored in two data files: a sequence graph in reference rGFA format16 containing the …
Twenty-five new microsporidian genomes: Insights into ploidy, reproduction, and the group's pangenome #SingleCell 🧪🧬🖥️
https://www.biorxiv.org/content/10.64898/2026.10.30.762710v1
https://www.biorxiv.org/content/10.64898/2026.10.30.762710v1
November 2, 2026 at 5:00 AM
Twenty-five new microsporidian genomes: Insights into ploidy, reproduction, and the group's pangenome #SingleCell 🧪🧬🖥️
https://www.biorxiv.org/content/10.64898/2026.10.30.762710v1
https://www.biorxiv.org/content/10.64898/2026.10.30.762710v1
CRV Science Labs ⚗️
🧬 Pangenome Variation Graph & Superbubble Calibration: Native rGFA & Walk Entropy Engine vs. minigraph v0.21 & gfatools v0.5 — Head-to-head calibration of our 4-stage native Rust rGFA pangenome constr…
https://crvscience.com/labs/discoveries/pangenome-graph-minigraph-vs-gfatools
🧬 Pangenome Variation Graph & Superbubble Calibration: Native rGFA & Walk Entropy Engine vs. minigraph v0.21 & gfatools v0.5 — Head-to-head calibration of our 4-stage native Rust rGFA pangenome constr…
https://crvscience.com/labs/discoveries/pangenome-graph-minigraph-vs-gfatools
CRV Science Labs ⚗️
🧬 Pangenome Variation Graph & Superbubble Calibration: Native rGFA & Walk Entropy Engine vs. minigraph v0.21 & gfatools v0.5 — Head-to-head calibration of our 4-stage native Rust rGFA pangenome constructor, Onodera–Sadakane–Shibuya superbubble decomposer, and walk genotyper agai…
crvscience.com
November 1, 2026 at 7:31 AM
CRV Science Labs ⚗️
🧬 Pangenome Variation Graph & Superbubble Calibration: Native rGFA & Walk Entropy Engine vs. minigraph v0.21 & gfatools v0.5 — Head-to-head calibration of our 4-stage native Rust rGFA pangenome constr…
https://crvscience.com/labs/discoveries/pangenome-graph-minigraph-vs-gfatools
🧬 Pangenome Variation Graph & Superbubble Calibration: Native rGFA & Walk Entropy Engine vs. minigraph v0.21 & gfatools v0.5 — Head-to-head calibration of our 4-stage native Rust rGFA pangenome constr…
https://crvscience.com/labs/discoveries/pangenome-graph-minigraph-vs-gfatools
an upcoming presentation as part of the American College of Medical Genetics and Genomics (ACMG) Fall 2026 Seminar Series!
🔬 Session 2: Smarter Diagnosis
Presentation: Clinical Application of the Human Pangenome: Practical Approaches to Genomic Interpretation & Implementation
🔬 Session 2: Smarter Diagnosis
Presentation: Clinical Application of the Human Pangenome: Practical Approaches to Genomic Interpretation & Implementation
November 2, 2026 at 8:03 PM
an upcoming presentation as part of the American College of Medical Genetics and Genomics (ACMG) Fall 2026 Seminar Series!
🔬 Session 2: Smarter Diagnosis
Presentation: Clinical Application of the Human Pangenome: Practical Approaches to Genomic Interpretation & Implementation
🔬 Session 2: Smarter Diagnosis
Presentation: Clinical Application of the Human Pangenome: Practical Approaches to Genomic Interpretation & Implementation
🧬 Advancing Genomic Diagnosis with the Human Pangenome!
We're excited to share that Kate Bonini, PhD, and Eimear Kenny, PhD, from the Institute for Genomic Health at the Icahn School of Medicine at Mount Sinai, will join Melissa Gymrek, PhD, from the University of California San Diego (UCSD), for
We're excited to share that Kate Bonini, PhD, and Eimear Kenny, PhD, from the Institute for Genomic Health at the Icahn School of Medicine at Mount Sinai, will join Melissa Gymrek, PhD, from the University of California San Diego (UCSD), for
November 2, 2026 at 8:03 PM
🧬 Advancing Genomic Diagnosis with the Human Pangenome!
We're excited to share that Kate Bonini, PhD, and Eimear Kenny, PhD, from the Institute for Genomic Health at the Icahn School of Medicine at Mount Sinai, will join Melissa Gymrek, PhD, from the University of California San Diego (UCSD), for
We're excited to share that Kate Bonini, PhD, and Eimear Kenny, PhD, from the Institute for Genomic Health at the Icahn School of Medicine at Mount Sinai, will join Melissa Gymrek, PhD, from the University of California San Diego (UCSD), for