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Christian Brueffer

@brueffer.io
1.7K followers 1.3K following 23 posts

Consultant in #bioinformatics and #cancer applications @insilico.consulting (all things #genomics, #liquidbiopsy, and #workflows) • 🇸🇪 🇩🇪 • 🧬🖥️ • brueffer.io ORCiD: 0000-0002-3826-0989

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Reposted by Christian Brueffer
Cancer Research UK National Biomarker Centre @cruknbc.bsky.social · 21/09/2026
📢 We are recruiting a Principal Bioinformatician (NBC/26/34) to join Vsevolod Makeev's Bioinformatics & Biostatistics team! An exciting opportunity for a skilled, highly motivated Computational Biologist in rare cancer research. 👉 Find out more & apply: cruknbc.org/vacancy-prin...
cruknbc.org
Vacancy: Principal Bioinformatician, Bioinformatics and Biostatistics Team - National Biomarker Centre
We are looking for a skilled and motivated Computational Biologist to join the Bioinformatics and Biostatistics Team.
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Reposted by Christian Brueffer
Lambros Frantzeskakis @lambrosf.bsky.social · 21/09/2026
If you’re a graduate student and interested in fungi please apply, this a great opportunity to experience research in an industry setting jobs.bayer.com/job/Chesterf...
jobs.bayer.com
Fungal Discovery & Genomics Co-Op
Fungal Discovery & Genomics Co-Op
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Reposted by Christian Brueffer
medRxivpreprint @medrxivpreprint.bsky.social · 24/08/2026
Population-scale integration of tumor transcriptomics into breast cancer care: a decade of the SCAN-B initiative www.medrxiv.org/content/10.64898/20…
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Reposted by Christian Brueffer
Anna Santure @annasanture.bsky.social · 24/08/2026
University of Auckland is looking for: Lead Technologist – Genomics - Te Kura Mātauranga Koiora | School of Biological Sciences in Auckland, New Zealand. jobs.smartrecruiters.com/TheUniversit...
jobs.smartrecruiters.com
Lead Technologist – Genomics - Te Kura Mātauranga Koiora | School of Biological Sciences
Company Description:  Waipapa Taumata Rau | The University of AucklandKo te whare Pūtaiao | The Faculty of Science at the University of Auckland is the largest and most highly...
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Reposted by Christian Brueffer
Keith Robison @omicsomics.bsky.social · 19/08/2026
HiFi's Not Very Pacific Waters omicsomics.blogspot.com/2026/08/hifi...
omicsomics.blogspot.com
HiFi's Not Very Pacific Waters
PacBio had a major shakeup early this month. First came a large round of layoffs, which caught several individuals who were very much the fa...
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Reposted by Christian Brueffer
Adam Phillippy @aphillippy.bsky.social · 06/08/2026
For the past 30 years, “whole-genome sequencing” has been a misnomer. Today the T2T Consortium publishes a dozen papers heralding a future of truly complete genomes for humans and nearly any vertebrate 👨‍🔬🐒🐦🐀🦒🐎🫏🐹🐟 (sorry, no salamanders): www.cell.com/consortium/t... 🧵[1/15]
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Sergey Nurk @sergeynurk.bsky.social · 07/07/2026
Senior Bioinformatics Software Developer opening in my team in ONT's Applications department! Hybrid with a few days a week in our Oxford headquarters. We can sponsor visas! www.linkedin.com/jobs/view/44...
linkedin.com
Oxford Nanopore Technologies hiring Senior Bioinformatics Software Engineer, Applications in Oxfordshire, England, United Kingdom | LinkedIn
Posted 3:04:10 PM. Job DescriptionOur goal is to bring the widest benefits to society through enabling the analysis of…See this and similar jobs on LinkedIn.
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Reposted by Christian Brueffer
Tim Fennell @tfenne.bsky.social · 22/06/2026
Realized that I released a couple of new tools last week and didn't announce anything. The first one is *dupblaster*. Samblaster inspired streaming queryname grouped duplicate marking for NGS reads: github.com/fulcrumgenom...
github.com
GitHub - fulcrumgenomics/dupblaster: Blazingly fast, streaming duplicate detection for NGS data
Blazingly fast, streaming duplicate detection for NGS data - fulcrumgenomics/dupblaster
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Rob Patro @robp.bsky.social · 14/06/2026
salmon 2.0 (the rust re-write) is now live! It's also the version you get if you install via bioconda. This is a from-scratch rewrite in rust, and the base for future development. I'll post a more detailed thread tomorrow, but you can read the docs here combine-lab.github.io/salmon/
combine-lab.github.io
salmon
Fast, accurate transcript quantification from RNA-seq reads.
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Reposted by Christian Brueffer
Dr. Sebastian Beier @sebastianbeier.bsky.social · 01/06/2026
Our paper on Trimmomatic v0.40 is officially published in Bioinformatics! A decade after the original, the ~50,000-times-cited NGS trimmer gets a major overhaul. Here's what's new 🧵 doi.org/10.1093/bioi... #Bioinformatics #NGS
doi.org
Trimmomatic: A decade of feature-rich, high-performance NGS read preprocessing
AbstractMotivation. Trimmomatic is a widely adopted tool for preprocessing high-throughput sequencing data, particularly from Illumina platforms. Since its
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Christian Brueffer @brueffer.io · 29/05/2026
Fantastic to see this work published, congratulations to all co-authors! It further validates the value of structural variants (SVs) as biomarkers for cancer liquid biopsy, as implemented in SAGA Diagnostics' Pathlight MRD test. #ctDNA #MRD #LiquidBiopsy #PrecisionMedicine #BrCa #BreastCancer
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Genome in a Bottle Consortium @genomeinabottle.bsky.social · 06/05/2026
Excited to announce we’ve constructed a complete, haplotype-resolved assembly of a human pancreatic cancer genome. By comparing tumor cell line and normal tissue assemblies directly, we developed phased somatic benchmarks. Thanks to many in GIAB! www.biorxiv.org/content/10.6...
biorxiv.org
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Fena Ochs @fenaochs.bsky.social · 02/01/2026
We are looking for a Postdoc at the Center for Gene Expression in Copenhagen. Deadline for applications is the 11th of January. If you are interested in 3D chromatin, SMC complexes, and super-resolution microscopy, join us. www.nature.com/naturecareer...
nature.com
Postdocs at Center for Gene Expression in Department of Cellular and Molecular Medicine - Copenhagen, Hovedstaden (DK) job with University of Copenhagen | 12849488
We are looking for 2 or more highly motivated postdocs interested in ribosome biology, 3D chromatin organisation, or regulation of protein turnove...
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Reposted by Christian Brueffer
Matt Holt @holtjma.bsky.social · 12/12/2025
There's an opening in our CompBio group at #PacBio. Apply below if you're interested in method / tool development for long-read sequencing applications! #Bioinformatics pacbio.wd12.myworkdayjobs.com/PacBio-/job/...
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Gosia Trynka @gosiatrynka.bsky.social · 04/12/2025
Hiring Senior Computational Postdoc to lead large-scale scRNAseq analysis for Project JAGUAR, one of the world’s most comprehensive single-cell immune resources from Latin American ancestries. If big data, global partnerships, human diversity and immune regulation excite you, apply! bit.ly/3XyFWrW
sanger.wd103.myworkdayjobs.com
Senior Postdoctoral Fellow
Do you want to help us improve human health and understand life on Earth? Make your mark by shaping the future to enable or deliver life-changing science to solve some of humanity’s greatest challenge...
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Aaron Quinlan (he/him) @aaronquinlan.bsky.social · 02/12/2025
We are thrilled to announce the first official release (v0.1.8) of #𝗯𝗲𝗱𝗱𝗲𝗿, the successor to one of our flagship tool, #𝗯𝗲𝗱𝘁𝗼𝗼𝗹𝘀! Based on ideas we conceived of long ago (!), this was achieved thanks to the dedication of Brent Pedersen. 1/n
quinlanlab.org
Intro to Bedder – The Quinlan Lab
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Trevor Graham @trevorgraham.bsky.social · 13/11/2025
Calling cancer data scientists! 📊 💽 🧮 We have a number of open positions in our core facility @icr.ac.uk These are bioinformatician staff scientist like roles to work on exciting single cell, spatial & other genomics data from across our Institute. A PhD is required. jobs.icr.ac.uk/vacancies/13...
jobs.icr.ac.uk
Data Scientist in Sutton | The Institute of Cancer Research
View details and apply for this Data Scientist vacancy in Sutton. Salary : Salary range £39,805 to £53,500 (Dependent on experience ) Reporting to: Professor Trevor Gra...
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Lars Gamfeldt @gamfeldt.bsky.social · 10/11/2025
Opportunity! Anybody knows of young marine ecologists (within 7 years from earned PhD) that would like to come to Gothenburg, Sweden, for a nationally funded Assistant Professorship? It is highly competitive but well funded. (1) of (3)
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conda @conda.org · 04/11/2025
Conda in the Packaging Spectrum: From pip to Docker to Nix If conda is a distribution, where does it fit alongside pip, Docker, and Nix? Part 2 of the 3-part series! 🚀 #conda #packaging #python conda.org/blog/conda-p...
conda.org
Conda in the Packaging Spectrum: From pip to Docker to Nix | conda.org
Part 2 of the 'Conda Is Not PyPI' series, placing conda among pip, Docker, and Nix and explaining its middle-path design.
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Karl Schmid @kjschmid.bsky.social · 07/10/2025
The Cluster of Excellence @greenrobust.de is hiring: - Computer Scientist/Research data manager: shorturl.at/xSvvO - Data steward: shorturl.at/l6NCv - Scientific coordinator 'Plant Perturbation Atlas': shorturl.at/vBU6x Deadline: Friday, 7 November 2025 RT are welcome #plantjobs #plantscijobs
uni-hohenheim.de
Stellenangebote: Universität Hohenheim
Aktuelle Stellenangebote der Universität Hohenheim.
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Reposted by Christian Brueffer
James Bonfield @jbonfield.bsky.social · 15/09/2025
Heads up: ignore samtools dot org, similarly minimap2 dot com and likely others. It's owned by a known phishing site and while the binaries they offer look valid currently (but note they may be serving us different binaries to others), that could change. Ie: it's not us (Samtools team)! Be warned
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Tuuli Lappalainen @tuuliel.bsky.social · 19/08/2025
A postdoc position in genomics available at our infrastructure in Uppsala, Sweden! An interesting R&D role a bit outside the traditional academic environment, great colleagues, work at the forefront of (long-read) sequencing. www.uu.se/en/about-uu/...
uu.se
Postdoctoral position - Uppsala University
Postdoctoral position, Department of Immunology, Genetics and Pathology, Uppsala University
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Mike Inouye @mikeinouye.bsky.social · 25/07/2025
📣📣 Cool job alert! The @bakerresearchau.bsky.social is recruiting up to 2 new PIs in Biomedical Data Science 👉 www.seek.com.au/job/85989791... You’d join an awesome institute in an incredible city (Melbourne, Australia) as well as partnerships like with @cam.ac.uk… you’ll also get to work with me 😁
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Peter Andersen @germline.bsky.social · 16/05/2025
📣 🥳 🧑‍💻 Our department is hiring: Tenure-Track Assistant Professor / Associate Professor in Bioinformatics at Aarhus University, Denmark Deadline June 1st Thanks for sharing! mbg.au.dk/en/news-and-...
mbg.au.dk
Tenure-Track Assistant Professor / Associate Professor in Bioinformatics at Aarhus University, Denmark - Vacancy at Aarhus University
Vacancy at Department of Molecular Biology and Genetics - BiRC - Bioinformatics Research Center, Aarhus University
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Heng Li @lh3lh3.bsky.social · 18/04/2025
Minimap2-2.29 released with the support of short RNA-seq read alignment. More explanation and results here: lh3.github.io/2025/04/18/s...
lh3.github.io
Short RNA-seq read alignment with minimap2
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acenglish.bsky.social @acenglish.bsky.social · 10/01/2025
🚀 Truvari v5.0 is here! 🎉 What’s new? 🔹 Enhanced symbolic variant support for <DEL>, <DUP>, <INV> 🔹 Robust BND comparison for cross-representation SV matching 🔹 Improved SV sequence similarity & HUGE SV support 🔹 Cleaner UI & Revamped API 👉 More: github.com/ACEnglish/tr... #Genomics #Bioinformatics
github.com
GitHub - ACEnglish/truvari: Structural variant toolkit for VCFs
Structural variant toolkit for VCFs. Contribute to ACEnglish/truvari development by creating an account on GitHub.
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Reposted by Christian Brueffer
Matteo Bocci @matteobocci.bsky.social · 13/03/2025
#ICYMI our deep dive into ALK1 biology, at the intersection between angiogenesis and immunology with clear implication for the targeting of immunomodulatory cues & cancer therapy!
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Sarah Moser @sarahmoser.bsky.social · 03/03/2025
BRCA1 turned 30 🎉 To celebrate, Jos Jonkers and I explored three decades of BRCA1 research - what we’ve learned about its biology, its role in tumorigenesis and future directions to improve the life of BRCA1 mutation carriers. Now out in Cancer Discovery ⬇️: aacrjournals.org/cancerdiscov...
aacrjournals.org
Thirty Years of BRCA1: Mechanistic Insights and Their Impact on Mutation Carriers
Abstract. Thirty years ago, the cloning of the first breast cancer susceptibility gene, BRCA1, marked a milestone in our understanding of hereditary breast and ovarian cancers. This discovery initiate...
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Genome in a Bottle Consortium @genomeinabottle.bsky.social · 20/12/2024
Our first curated draft somatic structural variant benchmark for the new GIAB PDAC tumor cell line HG008-T is at ftp-trace.ncbi.nlm.nih.gov/ReferenceSam..., based on extensive short+long read sequencing data described in doi.org/10.1101/2024.... Feedback to improve future versions is very welcome!
ftp-trace.ncbi.nlm.nih.gov
Index of /ReferenceSamples/giab/data_somatic/HG008/Liss_lab/analysis/NIST_HG008-T_somatic-stvar_DraftBenchmark_V0.1-20241219
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Paolo Tarantino, MD @ptarantinomd.bsky.social · 25/11/2024
Regular abstracts from #SABCS24 are out! 3407 pages of new breast cancer discoveries. Find them here: sabcs.org/Portals/0/Do...
sabcs.org
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Stacey Tinianov, MPH @coffeemommy.bsky.social · 21/11/2024
WOOT! Just in time for #SABCS24 looks like @sabcs.bsky.social is officially on BlueSky! cc: @maryamlustberg.bsky.social @drsgraff.bsky.social @stage4kelly.bsky.social @amjohnston.bsky.social @amybeumer.bsky.social @raalbany.bsky.social @hoperugo.bsky.social
media.tenor.com
two women are standing next to each other and one of them is saying i 'm so glad that you are here
ALT: two women are standing next to each other and one of them is saying i 'm so glad that you are here
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The OncoAlert Network 🚨 @oncoalert.bsky.social · 16/11/2024
Dear Colleagues, For all of you in BlueSky, Greetings, We are Now Here!! We invite you to Join & Follow OncoAlert at @oncoalert.bsky.social Thank you for your support!
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Christian Brueffer @brueffer.io · 16/11/2024
For the #cancer / #oncology folks, OncoAlert is now on bsky: @oncoalert.bsky.social
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Santiago Carmona 🧬 🖥️ 🧑🏾‍🔬 @carmonation.bsky.social · 15/11/2024
in case this is useful to someone in this massive platform migration: a starting pack for single-cell omics computational methods go.bsky.app/GmS1cH
go.bsky.app
single-cell computational methods
Join the conversation
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Johanna Joyce @johannajoyce.bsky.social · 14/11/2024
Inspired by the other amazing starter packs - here's one for cancer researchers! I tried to make this broad - from immunology to genomics to cell biology and so much more.. This list also includes organizations & institutes supporting cancer researchers 🧪🔬⚕️🩺 Hope its useful! go.bsky.app/FEoaJMc
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Christian Brueffer @brueffer.io · 15/11/2024
I've created a Breast Cancer Starter Pack covering clinical oncology and research. Please share, and let me know in case you'd like to be added. #brca #breastcancer go.bsky.app/6KXpPSy
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Keith Robison @omicsomics.bsky.social · 13/04/2024
We are actively recruiting for two open Computational Biology positions in our NGS group - both covered by this listing www.ginkgobioworks.com/job-listings...
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Christian Brueffer @brueffer.io · 20/02/2024
Happy to have contributed a small part to this study. "Ultrahigh" #HER2 copy number by #dPCR or #RNAseq signals poor response to adjuvant #trastuzumab in breast cancer.
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Bérénice Batut @bebatut.bsky.social · 19/02/2024
Online Hackathon to improve the annotation of @galaxyproject.bsky.social resources for microbial data analysis (and beyond): galaxyproject.org/events/2024-... 📆 Date: March 11th - 15th 📍 Location: Online via Zoom & chat. 2 daily stand-ups 👥 Participation: Free. Open to anyone, anywhere
galaxyproject.org
Hackathon - Improving the annotation of Galaxy resources for microbial
This hackathon aims to improve the annotation of Galaxy resources for microbial data analysis and beyond
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Anthony Mathelier @amathelier.bsky.social · 31/01/2024
Still a week to apply for this postdoc position to work with us on deep learning models for regulatory genomics 👇🏼
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Dani cRabaiotti 🦀 @danirabaiotti.bsky.social · 30/01/2024
We will have a job ad for Japanese ecologists coming soon - any tips on breaking into the Japanese cluster here (i know its pretty big)? Good feeds or anything I can pop up in? (Other than, obviously, posting in Japanese).
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Matthew Hahn @3rdreviewer.bsky.social · 17/01/2024
Interested in breaking all your bioinformatic pipelines? Look no farther: gatk.broadinstitute.org/hc/en-us/ar…
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Christian Brueffer @brueffer.io · 11/01/2024
Anyone know a commercial #lab running the #BioRad MSI ddPCR kit on plasma samples? Europe preferred but not mandatory. #dpcr #ddpcr #moleculardiagnostics #cancer
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Malcolm White @mfwhite2.bsky.social · 30/12/2023
For 2024, I'm going to use this flow-chart to prioritise requests to review papers. At the end of the year I'll let you know the numbers in each category. I thought of adding an "am I being paid?" question, but what's the point?
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Victor J. Torres @torreslab.bsky.social · 27/12/2023
Job Alert! We are looking for a Principal Bioinformatics Research Scientist with extensive experience in large-scale microbial genomics to create and direct our new Microbial Computational Genomics and Bioinformatics Lab @StJudeResearch stjude.wd1.myworkdayjobs.com/stjude/job/M...
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James Bonfield @jbonfield.bsky.social · 12/12/2023
New Samtools, Htslib and Bcftools 1.19 releases available. github.com/samtools/sam... and co. #bioinformatics 🧪
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Manuela Zucknick @manuelazucknick.bsky.social · 11/12/2023
Join our Oslo Centre for Biostatistics and Epidemiology as a full-time, permanent researcher in biostatistics or epidemiology. Application deadline Jan 15. Please see link for details. Looking forward to welcome *you* as our new colleague! 😊 www.finn.no/332286414
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Noam Ross @noamross.net · 07/12/2023
Job: Research software/data engineer for a short-term project building pipelines for a field + lab research project. We use #rstats, the {targets} framework, GitHub Actions, + Web APIs like AirTable, Google Sheets, + Open Data Kit. $50-60/hour, ~12 weeks full-time, remote. bit.ly/eha-rse-ad
Screen shot of the full job advertisement for a short-term research software engineer.  Full document in the link in the post.
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Chenxin Li, PhD @chenxinli2.bsky.social · 08/11/2023
Not enough people know about bioicons.com Open source vector graphics. Free alternatives to BioRender.
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Genome Aggregation Database (gnomAD) @gnomad-project.bsky.social · 01/11/2023
The #gnomAD team is proud to announce the release of gnomAD v4! The v4 dataset includes 730,947 exomes & 76,215 genomes, which is ~5x larger than the v2 & v3 releases combined, & includes nearly 120K indivs of non-European genetic ancestry broad.io/gnomad #ASHG23 (1/11)
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