Reposted by @eamonmc.bsky.socialbioRxivpreprint @biorxivpreprint.bsky.social · 28/09/2026Imaging-based spatial isoform transcriptomics resolves transcript diversity at cellular and subcellular resolution www.biorxiv.org/content/10.64898/20… 011
Reposted by @eamonmc.bsky.socialbioRxiv Neuroscience @biorxiv-neursci.bsky.social · 28/09/2026Imaging-based spatial isoform transcriptomics resolves transcript diversity at cellular and subcellular resolution www.biorxiv.org/content/10.64898/20… 021
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 14/08/2026Outreach matters to us. LongTREC fellow Satrio ran a two-hour session for undergraduate biology students at Universitas Pendidikan Indonesia on sequencing and nanopore technology. Talk: "Nanopore Sequencing: Anything, Anyone, Anywhere". #LongTREC 021
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 06/08/2026Exciting new tool just published by #LongTREC researchers Nadja Nolte, Marko Petek, and Kristina Gruden. LongPolyASE is out in Plant Methods, an end-to-end framework for allele-specific gene and isoform analysis from long-read RNA-seq. link.springer.com/article/10.1...link-springer-com.insb.bib.cnrs.frLogin Page 011
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 06/08/2026More exciting work just published by #LongTREC researchers. The promise of long-read RNA-seq: reducing bias in analyses of allele imbalance. Four case studies. Four species. One clear message: long reads can help fix allele imbalance. Go read it! academic.oup.com/nargab/artic...academic.oup.comThe promise of long-read RNA-seq: reducing bias in analyses of allele imbalanceAbstract. Inaccurate allele and gene expression counts due to map bias and genome ambiguity lead to high false positive and false negative rates in studies 021
Reposted by @eamonmc.bsky.socialNature Biotechnology @natbiotech.nature.com · 24/06/2026Joint profiling of chromatin and splicing in the brain uncovers shared and distinct patterns go.nature.com/3IKlcJn rdcu.be/fpONdgo.nature.comCombined single-cell profiling of chromatin–transcriptome and splicing across brain cell types, regions and disease state - Nature BiotechnologyJoint profiling of chromatin and splicing in the brain uncovers shared and distinct patterns. 093
Reposted by @eamonmc.bsky.socialSlavov Laboratory @slavovlab.bsky.social · 24/06/2026This discovery has been a long and exhilarating journey! It started in 2019 and proceeded through many challenges and thrilling highs. A journey that has opened new perspectives that we long to explore ! 066
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 11/05/2026The preliminary #VALT Scientific Programme was published last week! longtrec.eu/VALT/ Check the selected Talks and Flash talks! 👉 Still in time to join us at what is shaping up to be a super event! : lnkd.in/eXPG_6cYlongtrec.eu 022
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 30/04/2026⏰Your very last chance for Early Registration for the #VALT symposium! The early registration deadline is Today, April 30th. 📍 Valencia, Spain | 29 June to 1 July 🌞 Sunny days, Mediterranean vibes 🤝 Meaningful networking & new collaborations 🌊 And yes… the beach is waiting after the sessions 011
Reposted by @eamonmc.bsky.socialHeng Li @lh3lh3.bsky.social · 17/04/2026The correct link: lh3.github.io/2026/04/17/t...lh3.github.ioThe AI Rewrite Dilemma 1167
Reposted by @eamonmc.bsky.socialPáll Melsted @pmelsted.bsky.social · 06/03/2026Excited to share this preprint that describes my latest work on using GPUs to accelerate processing of RNA-seq data. The title says it all: "RNA-seq analysis in seconds using GPUs" now on biorxiv www.biorxiv.org/content/10.6... and github github.com/pachterlab/k... Figure 1 shows they key result 618887
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 29/01/2026We can't wait to see you in Valencia this summer at VALT! Check out our exciting Line up of speakers below. Interested in sharing your work on #LongReadTranscriptomics ? Abstract submission deadline 📅 March 31st. #LongTREC #LongReadSequencing #Nanopore #Pacbio 033
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 22/01/2026The registration to the #VALT symposium is open! longtrec.eu/valt/ Sign up to receive updates! Abstract submission deadline 📅 March 31st. We can't wait to see you in Valencia this summer for the most exciting Long Read Transcriptomics conference this year.longtrec.euVALT – LongTRECCheck your inbox or spam folder to confirm your subscription. 011
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 22/01/2026We can't wait to see you in Valencia this summer at VALT! Abstract submission deadline 📅 March 31st. #LongReadsTranscriptomics 044
Reposted by @eamonmc.bsky.socialAna Conesa @anaconesa.bsky.social · 22/01/2026🚀 Registration is now OPEN! longtrec.eu/VALT/ Join us in Valencia, Spain for the first symposium dedicated to #LongReadsTranscriptomics 🧬, with a dream set of keynote speakers. @pacbio.bsky.social @nanoporetech.com @elixir-europe.org @iscb.bsky.social @hitseq.bsky.social @i2sysbio.es 0127
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 15/12/2025New 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.orgTo join or not to join: handling biological replicates in long-read RNA sequencing dataLong-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 ... 043
Reposted by @eamonmc.bsky.socialNikolai Slavov @slavov-n.bsky.social · 27/10/2025The ‘‘inactive’’ X chromosome (Xi) is active. Xi regulates gene expression from the active X. 1/n 172
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 27/10/2025We’re thrilled to announce the first symposium dedicated to #LongReadsTranscriptomics, taking place in Valencia, Spain! More information available at: 👉 longtrec.eu/VALT/ Meet the #LongReadsTranscriptomics community, connect with experts, and explore the latest advances in this research area. 044
Reposted by @eamonmc.bsky.socialYun S. Song @yun-s-song.bsky.social · 22/09/2025We are excited to share GPN-Star, a cost-effective, biologically grounded genomic language modeling framework that achieves state-of-the-art performance across a wide range of variant effect prediction tasks relevant to human genetics. www.biorxiv.org/content/10.1... (1/n) 417690
Reposted by @eamonmc.bsky.socialWaggoner Lab @labwaggoner.bsky.social · 08/09/2025Conditional generation of real antigen-specific T cell receptor sequences @natmachintell.nature.com www.nature.com/articles/s42... 0122
Reposted by @eamonmc.bsky.socialNikolai Slavov @slavov-n.bsky.social · 08/08/2025DNA copy number variation is strongly buffered at the protein level. The buffering is much stronger than at the RNA level. 2194
Reposted by @eamonmc.bsky.socialNikolai Slavov @slavov-n.bsky.social · 06/08/2025Mechanotransduction in the nucleus Multiple TFs transmit mechanical forces into transcriptional regulation. Nuclear shape, size, and chromatin abnormalities are common features of many diseases. 05116
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 01/08/2025One week on, and we're still processing an amazing week at #ISMBECCB2025. We have learned so much and have been inspired by others to have some great ideas. One thing is undeniable - the future of computational biology is very bright! 011
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 24/07/2025Dont miss your second chance to catch all our #LongTREC posters on day 4 of #ISMBECCB2025 ! Also, dont miss an exciting talk by @tianyuanliu.bsky.social - "Transcriptome Universal Single-isoform Control (TUSCO) A framework for evaluating transcriptome quality." 15:40–15:50 Track iRNA · Room 02N 051
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 23/07/2025Dont miss our #Longtrec posters today at #ISMBECCB2025! Also, make sure to get to room 02N, the iRNA track for Leda Katopodis' exciting talk - "Charting the tRNAome in health and disease with AMaNITA" #tRNA #RNAMods #Epitranscriptome We're looking forward to meeting you!! 021
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 22/07/2025We at #LongTREC are super excited for day 2 of #ISMBECCB2025! We are also very excited about our posters and talks this Wednesday and Thursday. Download this flyer to make it easy to catch up on all the latest long-read transcriptomics research. #LongReadTranscriptomics 021
Reposted by @eamonmc.bsky.socialAna Conesa @anaconesa.bsky.social · 22/07/2025Second day of #ismbeccb2025 conference, @iscb.bsky.social CEO Diane Covats reminds us the commitment of the society with sustainability.Sign up the green Pledge tinyurl.com/GreenISCB, participate in the challenges and help to reduce our carbon footprint 042
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 21/07/2025Dont miss any of our #LongTREC communications at #ISMBECCB2025. Download this flyer to make catching all the latest & hottest long-read transcriptomics research simple. @anaconesa.bsky.social 056
Reposted by @eamonmc.bsky.socialAna Conesa @anaconesa.bsky.social · 21/07/2025@longtrec.bsky.social is presenting the latest & hottest long-read transcriptomics research at #ISMBECCB2025! Posters D-176 (isONclust3), C-207 (Multisample isoforms), C-237 (TSS prediction), D-202 (Single-cellSQANTI), and talks at iRNA (TUSCO, Amanita) and HitSeq (SQANTI-reads) @hitseq.bsky.social 072
Reposted by @eamonmc.bsky.socialClara Rodriguez @cianagalis.bsky.social · 14/07/2025It has been very exciting to meet all the participants and their eagerness to learn about #LongReadsTranscriptomics 053
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 14/07/2025Day 1 of our #SummerSchool : @carolinamonzo.bsky.social , Satrio Wibowo, Mahmud Sami Aydin and @tianyuanliu.bsky.social introducing participants to #LongReads sequencing technologies, how to design #lrRNAseq experiments, library preparation strategies for #lrRNAseq, mapping, QC and more! 034
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 14/07/2025🌎🗣️ First day at the LongTREC #SummerSchool @earlhaminst.bsky.social and the energy is already incredible! It’s amazing to see how quickly meaningful connections are forming. Scientific progress doesn’t happen in isolation — it’s built through collaboration, shared knowledge, and open dialogue. 033
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 13/07/2025🎥 The LongTREC video Continues: Juan Francisco Cervilla Martínez! Juan Francisco is a Doctoral Candidate at the @earlhaminst.bsky.social , working under the supervision of Wilfried Haerty. His research focuses on long-read single-cell transcriptomics to uncover Isoform usage within single cells. 044
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 13/07/2025A brief summary of the #LongCyclingForFuture bike trip that our LongTREC bikers have made from London to Norwich, passing via Cambridge. Join us to congratulate them on this adventure while raising awareness of the carbon footprint impact of scientific travel. @anaconesa.bsky.social 032
Reposted by @eamonmc.bsky.socialAna Conesa @anaconesa.bsky.social · 13/07/2025Tian is an extremely passionate and dedicated young researcher that is constantly trying to push the frontiers of knowledge. He is also extremely considerate and always bring us presents when he travels back from visiting his family in China!!! 032
Reposted by @eamonmc.bsky.socialAna Conesa @anaconesa.bsky.social · 13/07/2025Leda is really lucky to work in such an amazing scientific environment. She is our expert in tRNAs. Did you know that RNAs is much more that one linear sequence? They can be modified in many different ways before translation. Leda wants to crack the code and find how this impacts cancer. Go, Leda! 032
Reposted by @eamonmc.bsky.socialCarmen Lafuente Sanz @lafucarmen.bsky.social · 13/07/2025Here’s a quick 1-minute video where I share what my PhD is about as part of the @longtrec.bsky.social Marie Skłodowska-Curie Doctoral Network — feel free to take a look if you’re curious! 022
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 13/07/2025📽️ Next in the LongTREC Series: Tianyuan Liu! tianyuanliu.bsky.social is a Doctoral Candidate at @i2sysbio.es under the supervision of @anaconesa.bsky.social He explains the question he wants to answer: "How does the exact chromatin landscape at a promoter decide which RNA isoform is made?" 052
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 13/07/2025Next up in our LongTREC video series is Leda Katopodi! Leda is doing exciting research at @crg.eu, working with @evamarianovoa.bsky.social to explore the role of epitranscriptomic modifications of #tRNAs in cancer and beyond! #CancerResearch #tRNAs #RNAMods #Epitranscriptomics 042
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 13/07/2025🌊 Exploring the Ocean’s Genetic Secrets! Guided by @jm-aury.bsky.social and France Denoeud, @lafucarmen.bsky.social Doctoral Candidate at Genoscope - Centre National de Séquençage, shares how she's using long-reads on marine samples from the Tara Oceans expedition to explore genetic novelty. 075
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 13/07/2025📽️ Next in the LongTREC Series: Mahmud Sami Aydin! Sami is a Doctoral Candidate at @stockholm-uni.bsky.social , working under the supervision of @ksahlin.bsky.social .In this video, Sami shares his research and his role in the broader LongTREC collaboration across Europe. #AlgorithmDevelopment 064
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 13/07/2025📽️ From 🌞 Valencia: Meet Fabian Jetzinger in the LongTREC Series! Fabian is a Doctoral Candidate at BioBam Bioinformatics, working under the supervision of Stefan Götz, PhD. He is working to make the analysis of long-read RNA sequencing data more user-friendly in #OmicsBox tinyurl.com/nkszjjm5linkedin.com📽️ From 🌞 Valencia: Meet Fabian Jetzinger in the LongTREC Series! | LongTREC📽️ From 🌞 Valencia: Meet Fabian Jetzinger in the LongTREC Series! Fabian is a Doctoral Candidate at BioBam Bioinformatics, working under the supervision of Stefan Götz, PhD. He is working to make the... 054
Reposted by @eamonmc.bsky.socialAna Conesa @anaconesa.bsky.social · 12/07/2025We made it!!!! València-London by train. London-Norwich by bike!!! 0204
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 12/07/2025Not everyone can or wants to cycle for 2–3 days, but we can all take a moment to ask ourselves: 💡 “How much am I impacting the planet with this trip?” 💡 “What can I do to reduce that impact?” @anaconesa.bsky.social #LongCyclingForScience #SustainableScience #LongReadsTranscriptomics 074
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 12/07/2025The LongTREC video series continues with Pablo Angulo Lara, a Doctoral Candidate at @iitalk.bsky.social, where he works under the supervision of Francesco Nicassio. In this video, Pablo talks about his research and its impact. #LongReadsTranscriptomics #aneuploidy #cancer #computationalpipelines 042
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 12/07/2025Next Up in the #LongTREC Series 📽️ : Yalan Bi! Yalan is a LongTREC Doctoral Candidate working with Ralf Herwig at @molgen.mpg.de Yalan shares insights into her research project and her experience as part of the LongTREC network. #LongReadsTranscriptomics #AlternativeSplicing #ProteinInteraction 063
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 12/07/2025Next in out #LongTREC video series : Nadja Nolte, Doctoral Candidate working with Kristina Gruden and Marko Petek at the National Institute of Biology in Ljubljana, Slovenia. Check the video to learn more about her project! #LongReadsTranscriptomics #Potato #Poliploidy 032
Reposted by @eamonmc.bsky.socialLongTREC @longtrec.bsky.social · 12/07/2025Next in the #LongTREC video series, we turn the spotlight to Satrio Wibowo, under the supervision of@minomatt.bsky.social at @uniofnottingham.bsky.social, Satrio makes the complex ideas of his project easy to understand with his thoughtful explanation. #LongReadsTranscriptomics #AdaptiveSampling 062
