Prajna Hebbar
@prajnahebbar.bsky.social
Graduate Student Researcher,
Computational Genomics Lab,
UC Santa Cruz Genomics Institute.
Computational Genomics Lab,
UC Santa Cruz Genomics Institute.
Reposted by Prajna Hebbar
As the Moon eclipsed the Sun on 8 April 2024, birds took note.
Leveraging nature’s own experiment, scientists and the public joined forces to show how different species responded to sudden midafternoon darkness followed by a new “dawn.” Learn more this week in Science: https://scim.ag/48WbhLL
Leveraging nature’s own experiment, scientists and the public joined forces to show how different species responded to sudden midafternoon darkness followed by a new “dawn.” Learn more this week in Science: https://scim.ag/48WbhLL
October 9, 2025 at 6:05 PM
As the Moon eclipsed the Sun on 8 April 2024, birds took note.
Leveraging nature’s own experiment, scientists and the public joined forces to show how different species responded to sudden midafternoon darkness followed by a new “dawn.” Learn more this week in Science: https://scim.ag/48WbhLL
Leveraging nature’s own experiment, scientists and the public joined forces to show how different species responded to sudden midafternoon darkness followed by a new “dawn.” Learn more this week in Science: https://scim.ag/48WbhLL
Reposted by Prajna Hebbar
🦒Long read giraffe is out!🦒
Mapping long reads to pangenome graphs is ~10x faster than with GraphAligner, with veeery slightly better mapping accuracy, short variant calling, and SV genotyping than GraphAligner or Minimap2
Mapping long reads to pangenome graphs is ~10x faster than with GraphAligner, with veeery slightly better mapping accuracy, short variant calling, and SV genotyping than GraphAligner or Minimap2
Rapid, accurate long- and short-read mapping to large pangenome graphs with vg Giraffe https://www.biorxiv.org/content/10.1101/2025.09.29.678807v1
October 2, 2025 at 6:28 AM
🦒Long read giraffe is out!🦒
Mapping long reads to pangenome graphs is ~10x faster than with GraphAligner, with veeery slightly better mapping accuracy, short variant calling, and SV genotyping than GraphAligner or Minimap2
Mapping long reads to pangenome graphs is ~10x faster than with GraphAligner, with veeery slightly better mapping accuracy, short variant calling, and SV genotyping than GraphAligner or Minimap2
Reposted by Prajna Hebbar
Our work looking at the effects of using autosomal assumptions for calling variation on X and Y. We used simulated data to compare to a ground truth.
Tldr: Accurate ploidy is important for reducing false positives; appropriate alignment reduces false negatives.
www.biorxiv.org/content/10.1...
Tldr: Accurate ploidy is important for reducing false positives; appropriate alignment reduces false negatives.
www.biorxiv.org/content/10.1...
Best practices for improving alignment and variant calling on human sex chromosomes
Sex chromosome complement is the largest karyotypic variation observed in humans. X and Y chromosomes were once a pair of homologous autosomes. Although chromosome X and Y differentiated from one anot...
www.biorxiv.org
May 7, 2025 at 1:28 PM
Our work looking at the effects of using autosomal assumptions for calling variation on X and Y. We used simulated data to compare to a ground truth.
Tldr: Accurate ploidy is important for reducing false positives; appropriate alignment reduces false negatives.
www.biorxiv.org/content/10.1...
Tldr: Accurate ploidy is important for reducing false positives; appropriate alignment reduces false negatives.
www.biorxiv.org/content/10.1...
Reposted by Prajna Hebbar
The human pangenome continues to grow and improve! Release 2 is here! Click through for the details, but this is a pretty amazing dataset including not just the phased assemblies, but PacBio HiFi, ONT Ultralong, Dovetail/Illumina Hi-C, PacBio Kinnex, and Illumina WGS for all samples
📢 HPRC Release 2 is here!
Now with phased genomes from 200+ individuals, a 5x increase from Release 1.
Explore sequencing data, assemblies, annotations & alignments in our interactive data explorer ⬇️:
humanpangenome.org/hprc-data-re...
Now with phased genomes from 200+ individuals, a 5x increase from Release 1.
Explore sequencing data, assemblies, annotations & alignments in our interactive data explorer ⬇️:
humanpangenome.org/hprc-data-re...
May 12, 2025 at 1:52 PM
The human pangenome continues to grow and improve! Release 2 is here! Click through for the details, but this is a pretty amazing dataset including not just the phased assemblies, but PacBio HiFi, ONT Ultralong, Dovetail/Illumina Hi-C, PacBio Kinnex, and Illumina WGS for all samples
Reposted by Prajna Hebbar
📢 HPRC Release 2 is here!
Now with phased genomes from 200+ individuals, a 5x increase from Release 1.
Explore sequencing data, assemblies, annotations & alignments in our interactive data explorer ⬇️:
humanpangenome.org/hprc-data-re...
Now with phased genomes from 200+ individuals, a 5x increase from Release 1.
Explore sequencing data, assemblies, annotations & alignments in our interactive data explorer ⬇️:
humanpangenome.org/hprc-data-re...
May 12, 2025 at 1:15 PM
📢 HPRC Release 2 is here!
Now with phased genomes from 200+ individuals, a 5x increase from Release 1.
Explore sequencing data, assemblies, annotations & alignments in our interactive data explorer ⬇️:
humanpangenome.org/hprc-data-re...
Now with phased genomes from 200+ individuals, a 5x increase from Release 1.
Explore sequencing data, assemblies, annotations & alignments in our interactive data explorer ⬇️:
humanpangenome.org/hprc-data-re...
Our primate T2T paper came out in Nature yesterday! It was a huge effort and I'm so grateful that I got the opportunity to work with this amazing group of scientists over the first two years of my PhD!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Complete sequencing of ape genomes - Nature
Complete sequences of chromosomes telomere-to-telomere from chimpanzee, bonobo, gorilla, Bornean orangutan, Sumatran orangutan and siamang provide a comprehensive and valuable resource for future evol...
www.nature.com
April 10, 2025 at 9:59 PM
Our primate T2T paper came out in Nature yesterday! It was a huge effort and I'm so grateful that I got the opportunity to work with this amazing group of scientists over the first two years of my PhD!
www.nature.com/articles/s41...
www.nature.com/articles/s41...