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Anton Petrov

@antonipetrov.bsky.social
180 followers 200 following 18 posts

RNA bioinformatician | Building riboscope.com and r2dt.bio | Previously led RNAcentral, Rfam, and RNA 3D Hub

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Anton Petrov @antonipetrov.bsky.social · 27/09/2025
Structural architecture of the human long non-coding RNA-PAAN, as a potential target for anti-influenza drug development www.sciencedirect.com/science/arti... Really liked the paper but I found it interesting that the word "alignment" only appeared once, in references 🤔
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Anton Petrov @antonipetrov.bsky.social · 12/09/2025
High-throughput competitive binding assay for targeting RNA tertiary structures with small molecules: application to pseudoknots and G-quadruplexes academic.oup.com/nar/article/...
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Anton Petrov @antonipetrov.bsky.social · 02/07/2025
Bad RNA 2D → bad 3D — unless the software knows when to say “no thanks.” Can’t wait to read more! 👀
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Paul Gardner @ppgardne.bsky.social · 06/06/2025
An opportunity to run the greatest little RNA Databases that can, Rfam & RNAcentral: embl.wd103.myworkdayjobs.com/en-US/EMBL/j... The only downside is you have to live near Cambridge in the UK.
embl.wd103.myworkdayjobs.com
RNA Resources Project Leader
About the team/job We are recruiting a Project Leader to spearhead the development of the RNAcentral and Rfam databases. Rfam and RNAcentral are key resources for RNA Biology that serve tens of thousa...
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Anton Petrov @antonipetrov.bsky.social · 06/06/2025
I used to lead this team and genuinely loved it: @rnacentral.bsky.social & @rfamdb.bsky.social are hiring a new Project Leader If you care about RNA, open data, and the future of RNA therapeutics + AI, this is a rare and impactful role in bioinformatics embl.wd103.myworkdayjobs.com/en-US/EMBL/j...
embl.wd103.myworkdayjobs.com
RNA Resources Project Leader
About the team/job We are recruiting a Project Leader to spearhead the development of the RNAcentral and Rfam databases. Rfam and RNAcentral are key resources for RNA Biology that serve tens of thousa...
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Anton Petrov @antonipetrov.bsky.social · 23/05/2025
🤯 Implications for OLE RNA as a natural integral membrane RNA from Ron Breaker's lab rnajournal.cshlp.org/content/earl...
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Ensembl @ensembl.org · 07/05/2025
Ensembl release 114 is now out! We have now updated human data to MANE v1.4, new and exciting rodents, livestock, plants and insect genome 🐀 🐈‍⬛ 🪲, lots of species with variation data (@evarchive) and much more! More details on our blog (tinyurl.com/3v7cz2sm)%22 #Genomes #bioinformatics
tinyurl.com
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AI x Bio Discovery @aixbiobot.bsky.social · 29/04/2025
Quantum algorithm for identifying RNA 3D motifs by processing RNA secondary structure graphs [new] RNA struct. analysis via QC; encodes base interact. for motifs & drug targets.
Quantum algorithm for identifying RNA 3D motifs by processing RNA secondary structure graphsFigure 1Figure 2Figure 3
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Tominaga K. (tomiken) @pacyc184.bsky.social · 20/03/2025
MAFin: Motif Detection in Multiple Alignment Files | Bioinformatics | Oxford Academic academic.oup.com/bioinformatics/adv…
dx.doi.org
MAFin: Motif Detection in Multiple Alignment Files
AbstractMotivation. Whole Genome and Proteome Alignments, represented by the Multiple Alignment File (MAF) format, have become a standard approach in compa
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Paul Gardner @ppgardne.bsky.social · 06/05/2025
It's difficult to counter the basic challenges of RNA 3D -- more torsion angles, magnitudes fewer (unique) PDB structures & I'd add, it's more difficult to build good alignments!
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The EMBO Journal @embojournal.org · 13/03/2025
The crux of rigorously characterizing #IRES: Kathrin Leppek @katleppek.bsky.social, Maria Barna and colleagues compile a toolbox of approaches to study internal #ribosome entry sites in mammalian cells and embryonic tissues www.embopress.org/doi/full/10....
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Anton Petrov @antonipetrov.bsky.social · 28/04/2025
Cool stuff: DMS-FIRST-seq generates high-resolution, accurate RNA structures by coupling chemical probing with nanopore direct RNA sequencing
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Anton Petrov @antonipetrov.bsky.social · 20/04/2025
Increasing probe concentration causes some base-paired nucleotides to become unexpectedly reactive, often alongside changes in their complementary partners academic.oup.com/nar/article/...
academic.oup.com
Investigating the interplay between RNA structural dynamics and RNA chemical probing experiments
Abstract. Small molecule chemical probes that covalently bond atoms of flexible nucleotides are widely employed in RNA structure determination. Atomistic m
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Nicky Whiffin @nickywhiffin.bsky.social · 11/04/2025
🚨I could not be more excited to share our new preprint on saturation genome editing of the small nuclear RNA (snRNA) RNU4-2: www.medrxiv.org/content/10.1... A super fun collaboration with incredible duo @gregfindlay.bsky.social @joachimdejonghe.bsky.social from @crick.ac.uk 🧬🖥️🩺 🧵1/12
medrxiv.org
Saturation genome editing of RNU4-2 reveals distinct dominant and recessive neurodevelopmental disorders
Recently, de novo variants in an 18 nucleotide region in the centre of RNU4-2 were shown to cause ReNU syndrome, a syndromic neurodevelopmental disorder (NDD) that is predicted to affect tens of thous...
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Javier Santoyo @jsantoyo.bsky.social · 10/02/2025
Embed-Search-Align: DNA Sequence Alignment using Transformer models. #DNAalignment #TransformerModels #LLMs #LargeLanguageModels #Bioinformatics 🧬 🖥️ academic.oup.com/bioinformati...
academic.oup.com
Embed-Search-Align: DNA Sequence Alignment using Transformer models
AbstractMotivation. DNA sequence alignment, an important genomic task, involves assigning short DNA reads to the most probable locations on an extensive re
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Anton Petrov @antonipetrov.bsky.social · 17/03/2025
A synthetic tetracycline aptamer linked to a hammerhead ribozyme was engineered to regulate PD-1 expression academic.oup.com/nar/article/...
academic.oup.com
Structural investigation of an RNA device that regulates PD-1 expression in mammalian cells
Abstract. Synthetic RNA devices are engineered to control gene expression and offer great potential in both biotechnology and clinical applications. Here,
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Elena Rivas @rivaselenarivas.bsky.social · 16/03/2025
rnahub.og A webserver to generate RNA alignments with secondary structure assessment www.biorxiv.org/content/10.1...
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openRxiv @openrxiv.bsky.social · 11/03/2025
openRxiv has arrived! We’re thrilled to announce the launch of openRxiv as an independent, researcher-led nonprofit to oversee bioRxiv and medRxiv, the world’s leading preprint servers for life and health sciences. openrxiv.org/introducing-... #openRxiv #OpenScience #Preprints #bioRxiv #medRxiv
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AI x Bio Discovery @aixbiobot.bsky.social · 25/02/2025
Lab-in-the-loop therapeutic antibody design with deep learning [new] Automated Ab design using iterative ML, property prediction, & lab experiments, yielding improved binders against key targets.
Lab-in-the-loop therapeutic antibody design with deep learningFigure 1Figure 2Figure 3
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GigaScience Journal @gigascience.bsky.social · 19/02/2025
Presenting a new flexible web platform for sharing and integrating microbial omics data, including RNA-seq and transposon-insertion sequencing. Micromix: web infrastructure for visualizing and remixing microbial ‘omics data doi.org/10.1093/giga...
doi.org
Micromix: web infrastructure for visualizing and remixing microbial ‘omics data
Abstract. Micromix is a flexible web platform for sharing and integrating microbial omics data, including RNA sequencing and transposon-insertion sequencin
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Danny IncaRNAto @incarnatolab.bsky.social · 26/02/2025
#RNA rules
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Anton Petrov @antonipetrov.bsky.social · 25/02/2025
Insightful review on the ‘blind spots’ in current RNA modification detection methods, suggesting that the existing transcriptome-wide maps of modified nucleosides ‘should be considered as first drafts.’ A great read! 🧬📝 www.nature.com/articles/s41...
nature.com
All the sites we cannot see: Sources and mitigation of false negatives in RNA modification studies - Nature Reviews Molecular Cell Biology
Specialized RNA modification sequencing techniques are helping to uncover how dysregulation of RNA modification leads to disease. This Review discusses how technical artefacts can cause false negative...
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Hani Goodarzi @genophoria.bsky.social · 28/01/2025
This year, miRNAs won the Nobel Prize—small non-coding RNAs (smRNAs) have arrived! But the biology of many smRNAs remains a mystery. With Decoy-seq, we’re bringing smRNA genetics into the new decade. @hsnajafabadi.bsky.social www.biorxiv.org/content/10.1...
biorxiv.org
Decoy-seq unlocks scalable genetic screening for regulatory small noncoding RNAs
Small noncoding RNAs (smRNAs) play critical roles in regulating various cellular processes, including development, stress response, and disease pathogenesis. However, functional characterization of sm...
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Anton Petrov @antonipetrov.bsky.social · 10/02/2025
Many @ebi.embl.org resources rely on R2DT for RNA visualisation - huge thanks to everyone for their amazing work! 🙌 🧬
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Anton Petrov @antonipetrov.bsky.social · 10/02/2025
🚀 New Paper Alert! 🚀 𝐑𝟐𝐃𝐓: a comprehensive platform for visualising RNA secondary structure Check it out in @narjournal.bsky.social: academic.oup.com/nar/article/... Here’s why you should give it a try 🧵👇
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RNAcentral @rnacentral.bsky.social · 07/02/2025
8/12 Want to try it yourself? Search for RNAs with summaries at: rnacentral.org/search?q=has...
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RNAcentral @rnacentral.bsky.social · 07/02/2025
1/12 Excited to share our new paper in DATABASE on LitSumm - our system that uses large language models to automatically generate high-quality literature summaries for non-coding RNAs! 🧬📚
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Anton Petrov @antonipetrov.bsky.social · 23/01/2025
Here are my slides from today's talk on R2DT at the Cambridge RNA Club: docs.google.com/presentation...
docs.google.com
R2DT - Cambridge RNA Club 2025
R2DT: A comprehensive platform for visualising RNA secondary structure Anton I. Petrov Riboscope Ltd Jan 23rd, 2025 · Cambridge RNA Club 1 1
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Cambridge RNA @cambridgerna.bsky.social · 20/01/2025
Hello RNA people! Our first RNA Club of the year is taking place online this Thursday (5-6 pm)! We welcome @antonipetrov.bsky.social and @oguzhanbegik.bsky.social for some interesting talks! Thank you to our sponsors RNASociety and Lexogen! 🤩🧬
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Nikos Kouvelas @nickkouvelas.bsky.social · 10/12/2024
Oligomeric complexes of RNAs! #RNA, #RNAbiology, #RNASky www.biorxiv.org/content/10.1...
biorxiv.org
Naturally ornate RNA-only complexes revealed by cryo-EM
Myriad families of natural RNAs have been proposed, but not yet experimentally shown, to form biologically important structures. Here we report three-dimensional structures of three large ornate bacte...
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Paul Gardner @ppgardne.bsky.social · 03/12/2024
The latest RNA-Puzzles paper is out (CASP for RNA structure prediction). Check how wild some of the best predictions are for these small RNAs. We're still a long way from a reliable AlphaFold for RNA. www.nature.com/articles/s41...
Tertiary structure comparisons between 23 experimentally determined small RNA structures and the best structure prediction selected from 18 different groups.
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Anne Simon 🧪🌱🐴🦠🍊🇨🇦🇺🇦 @annealiz1.bsky.social · 13/11/2024
#RNA #RNAsky Such a great RNA community being built here! Thought I’d introduce our wonderful RNA structure drawing app RNAcanvas. 100’s of daily users all over the world rna2drawer.app RNAcanvas: interactive drawing and exploration of nucleic acid structures academic.oup.com/nar/article/...
academic.oup.com
RNAcanvas: interactive drawing and exploration of nucleic acid structures
Abstract. Two-dimensional drawing of nucleic acid structures, particularly RNA structures, is fundamental to the communication of nucleic acids research. H
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