Sign in

Egor Dolzhenko

@egor-dolzhenko.bsky.social
301 followers 377 following 0 posts

Bioinformatics scientist at PacBio. Opinions are my own.

PostsRepliesMedia
Reposted by Egor Dolzhenko
Jocelyne Bruand @jocelyne8.bsky.social · 15/09/2026
Our Isocall paper is out on bioRxiv www.biorxiv.org/content/10.6...! 🎉 Isocall enables scalable joint isoform calling on PacBio data, allowing for the characterization of isoform diversity across cohort-scale data. (1/7)
174
Reposted by Egor Dolzhenko
Matt Holt @holtjma.bsky.social · 27/08/2026
Our article introducing Aardvark for variant benchmarking is now published in Genome Biology! “Aardvark: sifting through differences in a mound of variants” DOI: doi.org/10.1186/s130... GitHub: github.com/PacificBiosc... Follow along for some highlights… 1/N
doi.org
Client Challenge
12210
Reposted by Egor Dolzhenko
Matt Holt @holtjma.bsky.social · 17/10/2025
I’ll be presenting a poster on Mitorsaw for #PacBio HiFi mitochondrial analysis today! Come see me this afternoon at #ASHG25 poster #4050 to chat about that or other topics!
022
Reposted by Egor Dolzhenko
Jon Belyeu @jonbelyeu.bsky.social · 15/10/2025
My new tool Paraviewer is now available for use at github.com/PacificBiosc...! If you use Paraphase, try this new next-step tool - it automates and greatly simplifies variant visualization from Paraphase variant calling. If you're at #ASHG2025, visit me today at poster 4109W. #pacbio
github.com
GitHub - PacificBiosciences/Paraviewer
Contribute to PacificBiosciences/Paraviewer development by creating an account on GitHub.
175
Reposted by Egor Dolzhenko
Chris Saunders @ctsa.bsky.social · 10/04/2025
Great to see that sawfish, our new HiFi SV caller, is accepted for publication in Bioinformatics! Sawfish emphasizes local haplotype modeling to improve SV representation and genotyping in both single and joint-sample analysis. Advance-access article now available: (1/n) doi.org/10.1093/bioi...
doi.org
Sawfish: Improving long-read structural variant discovery and genotyping with local haplotype modeling
AbstractMotivation. Structural variants (SVs) play an important role in evolutionary and functional genomics but are challenging to characterize. High-accu
24324
Reposted by Egor Dolzhenko
Heidi Rehm @heidirehm.bsky.social · 28/03/2025
We are excited to announce a call for papers for a special issue of Genome Medicine genomemedicine.biomedcentral.com on "Clinical interpretation of genome variation". The submission deadline is Dec 18, 2025. More info here: go.sn.pub/gskvsk.
go.sn.pub
Call for papers - Clinical interpretation of genome variation: volume II
0187
Reposted by Egor Dolzhenko
Harriet Dashnow @hdashnow.bsky.social · 26/03/2025
The strchive.org paper is out!! The paper describes STRchive as a resource to improve the diagnosis of tandem repeat disorders, then goes beyond it to consider what can be learned about childhood onset and population prevalence of these diseases. 🖥️ 🧬 link.springer.com/article/10.1...
link.springer.com
STRchive: a dynamic resource detailing population-level and locus-specific insights at tandem repeat disease loci - Genome Medicine
Approximately 8% of the human genome consists of repetitive elements called tandem repeats (TRs): short tandem repeats (STRs) of 1–6 bp motifs and variable number tandem repeats (VNTRs) of 7 + bp moti...
2125
Reposted by Egor Dolzhenko
Aaron Quinlan (he/him) @aaronquinlan.bsky.social · 26/03/2025
A new article from Laurel Hiatt and @hdashnow.bsky.social describing STRchive is now available at Genome Medicine. genomemedicine.biomedcentral.com/articles/10.... Check out the database resource, as STRchive "streamlines TR variant interpretation at disease-associated loci." strchive.org
genomemedicine.biomedcentral.com
STRchive: a dynamic resource detailing population-level and locus-specific insights at tandem repeat disease loci - Genome Medicine
Approximately 8% of the human genome consists of repetitive elements called tandem repeats (TRs): short tandem repeats (STRs) of 1–6 bp motifs and variable number tandem repeats (VNTRs) of 7 + bp moti...
0158
Reposted by Egor Dolzhenko
PacBio @pacbio.bsky.social · 21/01/2025
Exciting Huntington’s disease discovery from the @broadinstitute.org, Harvard, and McLean Hospital using the power of long-read #sequencing! Learn what surprising mechanism was uncovered, the potential impact on therapeutic developments, & how #PacBio played a role. www.cell.com/cell/fulltex...
cell.com
Long somatic DNA-repeat expansion drives neurodegeneration in Huntington’s disease
Single-cell measurement of the Huntington’s disease-causing CAG repeat reveals that somatic expansion of this repeat drives pathological changes in neurons, providing insights into disease progression...
081
Reposted by Egor Dolzhenko
PacBio @pacbio.bsky.social · 15/01/2025
Congrats to University of Miami, @broadinstitute.org, and more on deepening our understanding of complex disease! Using #PacBio HiFi long-read #sequencing, the team uncovered critical insights into tandem repeat variability, a challenge for traditional short-read technologies. bit.ly/3C8ZyeU
bit.ly
Detailed tandem repeat allele profiling in 1,027 long-read genomes reveals genome-wide patterns of pathogenicity
Tandem repeats are a highly polymorphic class of genomic variation that play causal roles in rare diseases but are notoriously difficult to sequence using short-read techniques[1][1],[2][2]. Most prev...
063
Reposted by Egor Dolzhenko
Alex Hoischen @ahoischen.bsky.social · 13/01/2025
Image a set of 100 rare disease cases with the most difficult-to-detect mutations a human genetics lab can be faced with. …many of which very difficult or even impossible to detect with (short-read) sequencing methods, and/or requiring additional orthogonal tests… www.cell.com/ajhg/abstrac...
cell.com
HiFi long-read genomes for difficult-to-detect, clinically relevant variants
Detecting pathogenic germline variants in the clinic remains technically challenging. We analyzed 145 previously identified, hard-to-detect variants in 100 samples using HiFi long-read sequencing (LRS...
1169
Reposted by Egor Dolzhenko
arianna-tucci.bsky.social @arianna-tucci.bsky.social · 06/01/2025
Come and join the lab! we have a position available to work on the analysis of short and long-read DNA and RNA sequencing from patients with repeat expansion diseases jobs.ac.uk/job/DLG312/bio…
jobs.ac.uk
053
Reposted by Egor Dolzhenko
bioRxivpreprint @biorxivpreprint.bsky.social · 08/01/2025
Detailed tandem repeat allele profiling in 1,027 long-read genomes reveals genome-wide patterns of pathogenicity www.biorxiv.org/content/10.1101/202…
011
Reposted by Egor Dolzhenko
Laurits Skov @lauritsskov.bsky.social · 02/12/2024
Very excited (and a bit nervous) to announce that I will be hiring two Postdocs for my new group(!) in Copenhagen to study the Neanderthal and Denisovan DNA which survives in present-day humans. Retweet will be much appreciated :) Link for application: candidate.hr-manager.net/ApplicationI...
9416284
Reposted by Egor Dolzhenko
Harriet Dashnow @hdashnow.bsky.social · 12/12/2024
I am excited to present STRchive.org v2! A resource for tandem repeats associated with Mendelian disease. We have resigned the website, added new loci, streamlined our data for easier reuse, added more detailed citations, presented population frequency data and more!
strchive.org
STRchive
An archive of STRs associated with human diseases
1229
Reposted by Egor Dolzhenko
Matt Holt @holtjma.bsky.social · 11/12/2024
“StarPhase: Comprehensive Phase-Aware Pharmacogenomic Diplotyper for Long-Read Sequencing Data” is now on biorxiv! In this work, we explore the use of long-read sequencing (#PacBio #HiFi) for #pharmacogenomics #PGx. 1/N Pre-print: doi.org/10.1101/2024... Repo: github.com/PacificBiosc...
github.com
GitHub - PacificBiosciences/pb-StarPhase: A phase-aware pharmacogenomic diplotyper for PacBio datasets
A phase-aware pharmacogenomic diplotyper for PacBio datasets - PacificBiosciences/pb-StarPhase
21916
Reposted by Egor Dolzhenko
Michael Eberle @meberle.bsky.social · 11/12/2024
Great work by @holtjma.bsky.social to create this PGx caller, StarPhase. Special thanks to the many collaborators who shared data and provided feedback on how to improve the accuracy and user experience.
062
Reposted by Egor Dolzhenko
Sarah Doom @sarahdoom.bsky.social · 23/11/2024
ICYMI my poster at #AMPath24, I'm sharing it here. Folks interested in long reads to resolve complex loci like repeat expansions relevant to neuro disease and carrier screening, check it out! @pacbio.bsky.social collab with @egor-dolzhenko.bsky.social @guilhermesena1.bsky.social and many others
3158
Reposted by Egor Dolzhenko
Jon Belyeu @jonbelyeu.bsky.social · 13/11/2024
If you were interested but missed it: www.pacb.com/wp-content/u...
pacb.com
055
Reposted by Egor Dolzhenko
grossscientist.bsky.social @grossscientist.bsky.social · 13/11/2024
import twitter as x Import bluesky as bs del x bs.activate()
183
Reposted by Egor Dolzhenko
PacBio @pacbio.bsky.social · 12/11/2024
A little birdie told us we should migrate to bluer skies. 😉 Hello Bluesky world. 👋🌎 Please re-share this post so we can follow you and help to grow the genomics community on here! 🧬✨
617967
Reposted by Egor Dolzhenko
Matt Holt @holtjma.bsky.social · 11/11/2024
If you missed this poster session at #ASHG24, you can now view the poster online! Happy to have a chat if you're interested in long-read PGx with #PacBio! www.pacb.com/wp-content/u...
071