Still plenty of time to REGISTER TO VOTE Still plenty of time to call your Family, Friends, Neighbors, Coworkers, and Young People STILL TIME TO CHECK YOUR REGISTRATION THESE NUMBERS MUST CHANGE Blue Wave in 49 Days 🗳
Elena Rivas
@rivaselenarivas.bsky.social
computational biologist. algorithms for genomics. worried about sustainability: from personal 2 country 2 planet. 🧪🧬| http://rivaslab.org
The Chen Lab @ EMBL Rome (current population: 1) is hiring! Looking for an experimental Lab Manager w/ a PhD and experience in molecular bio and mouse-based neuro research. Apply if you like: mouse behaviors, high-throughput sequencing, good coffee & ancient history tinyurl.com/48h66vfh
Lab Manager
The European Molecular Biology Laboratory (EMBL) is one of the world’s leading life science research organizations. With sites across Europe, EMBL fosters an international, collaborative, and inclusiv...
tinyurl.com
Seismograph recordings from Granada, Spain, time synced to events in the World Cup final
"Computational Approaches to RNA Structure and Function" Thank you all for a great meeting We'll meet again July 2028
Trump / Miller are now limiting student visas to 4 years. PhD programs typically run 5-6 years in many disciplines.
Trump administration tightens visa rules for foreign students
Students will need federal permission to stay longer than four years in the US and universities will lose the power to extend visas.
bbc.com
Carl T. Bergstrom@carlbergstrom.com · last yr.Every single day of this administration, I have thought of my late professor Joe Nye and his work on soft power. Every single day of this administration, Trump finds a new way to hemorrhage soft power from a country that once had more to spare than any in the world.
All 100+ participants arrived safely to Benasque for the workshop "Computational Approaches to RNA Structure and Function" Looking forward to our opening talk "RNA structure 3D prediction and cryo-EM structures" by Rachael Kretsch, and to our meeting to organize the rest of talks and interactions.
New! R-scape version v2.6.11 github.com/EddyRivasLab... with drawings of R-scape annotated RNA consensus structures with many fewer overlaps!! Using RFview github.com/dincarnato/R... Shout out to @incarnatolab.bsky.social for displaying R-scape's covariation outputs + CaCoFold-R3D structures.
🚀 We're hiring a 𝗕𝗶𝗼𝗶𝗻𝗳𝗼𝗿𝗺𝗮𝘁𝗶𝗰𝘀 𝗗𝗮𝘁𝗮 𝗘𝗻𝗴𝗶𝗻𝗲𝗲𝗿 to run, maintain and optimise pipelines behind Rfam and RNAcentral, including development of LLMs, agent orchestration workflows, and more! Apply by 28 June👇 embl.wd103.myworkdayjobs.com/en-US/EMBL/j... #RNA #Bioinformatics #AI #DataEngineering #job
Bioinformatics Data Engineer (RNA Resources)
About the Team Rfam and RNAcentral are key resources for RNA biology, serving tens of thousands of users every year and widely cited in the scientific literature. We are recruiting a Bioinformatics Da...
embl.wd103.myworkdayjobs.com
Wondering why the NIH has such a slow pace of grantmaking this year? Here’s my breakdown. elizabethginexi.substack.com/p/the-execut...
The Executive Orders Blocking Your NIH Grant
This image was generated by Google AI (Gemini)
elizabethginexi.substack.com
Small Model, Big Insight: RNA Structure Rules Emerge from Minimal Data 🧬 #AcademicSky #higherEd #RNA www.mcb.harvard.edu/department/n... @rachellegaudet.bsky.social @naoshigeuchida.bsky.social @nature.com @harvard.edu
Small Model, Big Insight: RNA Structure Rules Emerge from Minimal Data - Harvard University - Department of Molecular & Cellular Biology
MCB Senior Research Fellow Elena Rivas and colleagues have demonstrated that the fundamental rules governing RNA structure can be learned using a remarkably simple computational model—challenging assu...
mcb.harvard.edu
@nygenome.org is hiring Genomic AI Fellows! (fancy postdoc positions) If you're interested in working at the interface of AI and genomics in a great environment please apply at: jobs.silkroad.com/NYGenome/Car...
NYGC Genomic AI Fellows - 101 Avenue of the Americas, 7th Floor, New York, New York - New York Genome Center
Find a career with New York Genome Center
jobs.silkroad.com
www.nature.com/articles/s42...
What does it take to learn the rules of RNA base pairing? A lot less than you may think - Communications Biology
Deep-learning models typically require large parameter spaces and extensive training data. Here the authors demonstrate that learning the fundamental biological rules of RNA base pairing can be achiev...
nature.com
Tools fail to identify most AI-generated peer-review reports, say researchers, who warn that the issue is only getting worse. go.nature.com/44SntdQ
‘A serious problem’: peer reviews created using AI can avoid detection
Tools fail to identify most AI-generated peer-review reports, say researchers, who warn that the issue is only getting worse.
go.nature.com
Registration to the next RNA BENASQUE meeting July 05-17 2026 is open. benasque.org/2026rna/ Yes, Benasque is my profile pic. This #RNA meeting puts together for 2 weeks researchers in computational methods for structural RNA. 9th edition already! #RNAsky
Computational Approaches to RNA Structure and Function
benasque.org
Please join us for our next seminar, featuring Danny IncaRNAto, PhD: “Discovery of RNA regulatory structural switches via ensemble mapping” @incarnatolab.bsky.social #rna #casprnasig #rnastructure
RNA3DB 2025-10-01 release github.com/marcellszi/r... #RNA #RNAsky The database of all RNA chains in PDB arranged in structurally disimilar components, including Rfam annotation. More chains (25,666), more independent components (144), more Rfam families represented (853).
RNA Structure beyond Canonical Base Pairs Guided by Evolution 🧪🧬 #AcademicSky #higherEd www.mcb.harvard.edu/department/n... @rivaselenarivas.bsky.social @rachellegaudet.bsky.social @cryptogenomicon.bsky.social @dulaclab.bsky.social @neurovenki.bsky.social @naoshigeuchida.bsky.social
RNA Structure beyond Canonical Base Pairs Guided by Evolution - Harvard University - Department of Molecular & Cellular Biology
In addition to messenger RNA (mRNA) that provide the code for proteins, there are other RNAs that exert their function just as RNA, usually referred to as non-coding […]
mcb.harvard.edu
Laser ablation of imaged surface layers under adaptive control enables volumetric imaging of heterogeneous tissue like skull and brain. www.nature.com/articles/s41...
Integrated prediction of RNA secondary structure jointly with 3D motifs and pseudoknots guided by evolutionary information. @aakaran31.bsky.social and @rivaselenarivas.bsky.social link.springer.com/article/10.1...
All-at-once RNA folding with 3D motif prediction framed by evolutionary information - Nature Methods
Structural RNAs exhibit a vast array of recurrent short three-dimensional (3D) elements found in loop regions involving non-Watson–Crick interactions that help arrange canonical double helices into tertiary structures. Here we present CaCoFold-R3D, a probabilistic grammar that predicts these RNA 3D motifs (also termed modules) jointly with RNA secondary structure over a sequence or alignment. CaCoFold-R3D uses evolutionary information present in an RNA alignment to reliably identify canonical helices (including pseudoknots) by covariation. Here we further introduce the R3D grammars, which also exploit helix covariation that constrains the positioning of the mostly noncovarying RNA 3D motifs. Our method runs predictions over an almost-exhaustive list of over 50 known RNA motifs (‘everything’). Motifs can appear in any nonhelical loop region (including three-way, four-way and higher junctions) (‘everywhere’). All structural motifs as well as the canonical helices are arranged into one single structure predicted by one single joint probabilistic grammar (‘all-at-once’). Our results demonstrate that CaCoFold-R3D is a valid alternative for predicting the all-residue interactions present in a RNA 3D structure. CaCoFold-R3D is fast and easily customizable for novel motif discovery and shows promising value both as a strong input for deep learning approaches to all-atom structure prediction as well as toward guiding RNA design as drug targets for therapeutic small molecules.
link.springer.com
Vaccines have one of the highest reward to risk ratios of any medical intervention in human history. This sociopathic conspiracy theorist is literally killing people, causing the deaths by vaccine-preventable diseases of people who could have lived.
jamelle@jamellebouie.net · last yr.there is no question in my mind that rfk jr is the most dangerous person in this administration and that his eugenicist ideology threatens the lives of millions of people www.advocate.com/politics/dem...
New York Times story with profiles of researchers whose grants were terminated. [Gift Link] www.nytimes.com/2025/08/24/o...
Opinion | America First? Not When It Comes to Your Health.
nytimes.com
we asked a simple question: What does it take to learn the rules of RNA base pairing? using standard deep-learning technics, got a simple answer: don't need structures, nor alignments or many parameters only a few RNA sequences and 21 parameters; doi.org/10.1101/2025...
doi.org
Kseniia Petrova walked out of the Boston federal courthouse this afternoon on pre-trial release. My writeup for @cambridgeday.com www.cambridgeday.com/2025/06/12/p...
Petrova released on bail from federal detention, walks out of courthouse; indictment still possible - Cambridge Day
Harvard researcher Kseniia Petrova was released on bail after a 10-minute hearing in her criminal smuggling case – of frog embryos meant for scientific use.
cambridgeday.com
Reminder: Nobel-prize winning PCR (1983), used in basically all genetic tech today, was only possible because of extremophile bacterium discovered in 1964 in Yellowstone funded by a small ~$80k NSF grant with no obvious application at the time. #science 🧪 www.richmondscientific.com/how-a-discov...
How a discovery in Yellowstone National Park led to the development of PCR - Richmond Scientific
A discovery in Yellowstone National Park led to the development of PCR, the gold-standard COVID-19 tests used to fight the global pandemic.
richmondscientific.com
Important validation of our covariation-based screens for conserved structural RNAs. academic.oup.com/nar/article/... work lead (both computational and experimental) by then undergraduate, William Gao
Milo B. Fasken, Ph.D.@milofasken.bsky.social · last yr.Nice! #RNA #Intron #Scerevisiae www.nature.com/articles/s41...
Another fantastic explanation of how basic science helps people and society.
Northwestern Research@nuresearch.bsky.social · last yr.Northwestern scientist Julius Lucks makes an eloquent appeal for why research funding matters to us all. tinyurl.com/yjbk5zca #syntheticbiology #research #northwestern #funding