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Carolina J Oquendo

@carolinajo.bsky.social
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Reposted by Carolina J Oquendo
Earlham Institute @earlhaminst.bsky.social · 14/08/2026
Join our new training course for hands-on experience in long-read #scRNAseq, covering everything from experimental design to data interpretation with our research faculty. Find out more below ⤵️ #longreads #singlecell #RNAseq
okt.to
Single-cell Long-read Bioinformatics: from Data Generation to Visualisation
Hands on training in long‑read single‑cell RNA‑seq, from experimental design to data interpretation
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Reposted by Carolina J Oquendo
Adam Ameur @adameur.bsky.social · 10/08/2026
Submit your abstract for #LRUA26! Don't miss this unique opportunity to share your long-read sequencing research with leading experts. Oral and poster presentations will be selected from submitted abstracts. For registration and abstract submission: lrua.se Deadline: August 26
lrua.se
Long-Read Sequencing Uppsala, November 2–4, 2026
#LRUA26: Empower your research with long-read sequencing technologies and connect with experts, peers, and industry leaders in Uppsala this November.
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Reposted by Carolina J Oquendo
EMBL-EBI @ebi.embl.org · 27/07/2026
📣 We're recruiting for the EMBL-EBI-Sanger Postdoctoral (ESPOD) programme! ESPOD builds on the collaborative relationship between EMBL-EBI and the @sangerinstitute.bsky.social, offering projects that combine wet and dry-lab experience. Learn more & apply: www.ebi.ac.uk/research/pos...
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Reposted by Carolina J Oquendo
Ana Conesa @anaconesa.bsky.social · 14/07/2026
🎉 Our TUSCO paper is out in Nature Communications! A new benchmarking framework for long-read transcriptome reconstruction using curated single-isoform genes as internal ground truth — no spike-ins needed, by talented @tianyuanliu.bsky.social 🧬🔗 nature.com/articles/s41467-026-72089-1
nature.com
TUSCO: benchmarking transcriptome reconstruction with endogenous single-isoform controls - Nature Communications
Long-read sequencing enables comprehensive transcriptome characterization but remains challenging to benchmark due to sequencing errors, sample variability, and the limited scope of existing evaluatio...
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Reposted by Carolina J Oquendo
Bernardo Rodríguez Martín @bernardo-rodriguez.bsky.social · 03/06/2026
📢📢 Job opening between the Bioinformatics Unit and my group (REPBIO) at @crg.eu Interested in contributing to our efforts to leverage long-read sequencing technologies for human genome research? Join us in Barcelona: recruitment.crg.eu/content/jobs... Please repost😊
recruitment.crg.eu
Bioinformatician | CRG Online Recruitment Portal
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Reposted by Carolina J Oquendo
European Journal of Human Genetics @ejhg-journal.bsky.social · 03/06/2026
🧬 Long-read RNA-seq uncovers splicing events missed by short reads and enhances variant interpretation in rare disorders. @carolinajo.bsky.social 📢 This study highlights its clinical utility and feasibility for high-throughput use. 🔗Read more: www.nature.com/articles/s41...
nature.com
HiFi long-read RNA sequencing enhances clinical diagnostics in rare disorders - European Journal of Human Genetics
European Journal of Human Genetics - HiFi long-read RNA sequencing enhances clinical diagnostics in rare disorders
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Reposted by Carolina J Oquendo
Goeke Lab @goekelab.bsky.social · 11/05/2026
We are thrilled to release Bambu-pipe 🧬 🚀 A Nextflow pipeline built for speed, scalability, and precision — unlocking isoform-level insights from long-read single-cell and spatial RNA-seq data💡 🔗 GitHub: github.com/GoekeLab/bambu-pipe 📄 Preprint: doi.org/10.1101/2024.12.30.630828
github.com
GitHub - GoekeLab/bambu-pipe: Transcript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu
Transcript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu - GoekeLab/bambu-pipe
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Reposted by Carolina J Oquendo
amcguigan.bsky.social @amcguigan.bsky.social · 18/05/2026
I’m delighted to share our work leveraging homozygous deletions to discover rare disease diagnoses and novel disease genes - see the preprint here: www.medrxiv.org/content/10.6...
medrxiv.org
A genome-wide deletion map in 125,730 individuals for novel rare disease gene and variant discovery
Structural variants (SVs) can disrupt gene function and contribute to pathogenesis of rare disorders. Here, we created a genome-wide knockout dataset across 125,730 individuals with genome sequencing ...
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Reposted by Carolina J Oquendo
Dr Jenny Lord @drjennylord.bsky.social · 24/03/2026
Our new preprint exploring blood-based RNA-Seq for rare disorder diagnostics in the 100,000 Genomes Project is out! doi.org/10.64898/202... Here are some key findings…
doi.org
Blood-based RNA-Seq of 5412 individuals with rare disease identifies new candidate diagnoses in the National Genomic Research Library
RNA sequencing (RNA-Seq) is increasingly used alongside exome and genome sequencing to identify causal variants underlying rare Mendelian disorders. We present short-read RNA-Seq data from 5,412 indiv...
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Reposted by Carolina J Oquendo
LongTREC @longtrec.bsky.social · 15/12/2025
New preprint on #LongReadTranscriptomics from @fabianjetzinger.bsky.social #LongTREC. How you combine replicates in long-read experiments matters more than you think — it shapes detection of both known and novel transcripts! A must read for Long read RNA-seq users! www.biorxiv.org/content/10.6...
biorxiv.org
To join or not to join: handling biological replicates in long-read RNA sequencing data
Long-read RNA sequencing (lrRNA-seq) has revolutionized transcriptomics facilitating the study of alternative splicing and resulting in identification of thousands of novel transcripts. While isoform ...
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