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Rocío Mercado Oropeza

@rociomer.bsky.social
390 followers 526 following 178 posts

Assistant professor in Data Science and AI at Chalmers University of Technology | SciLifeLab Group Leader | PI for AI lab for Molecular Engineering (AIME) | ailab.bio | rociomer.github.io

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Reposted by Rocío Mercado Oropeza
Martin Rahm @rahmlab.bsky.social · 23/09/2026
PhD position at Chalmers University of Technology in 🇸🇪: computational materials design of carbon- and oxygen-based conductors! @chemjobber.bsky.social @thephdplace.bsky.social #PhDposition #CondensedMatter #CompChem #ChemSky #AcademicSky www.chalmers.se/en/about-cha...
chalmers.se
Vacancies
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Janus Juul Eriksen @januseriksen.bsky.social · 16/09/2026
Deadline on September 25th is approaching soon. Please get your applications in and reach out to me by email beforehand with any questions you might have. RTs are most welcome.
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Simon Olsson @smnlssn.bsky.social · 10/09/2026
When we design molecule we often want to target properties which are averages for the Boltzmann ensemble, rather than a single configuration or graph. Yet, current property-guided 3D generative models condition on single conformers. We target this with Boltzmann-Expected Design
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Rocío Mercado Oropeza @rociomer.bsky.social · 03/09/2026
Check out our recent study! now out in Digital Discovery
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Simon Olsson @smnlssn.bsky.social · 25/08/2026
Happy to announce this years Structured Learning Workshop, Oct 27–28 at Chalmers, Gothenburg! Exceptional speakers from academia & industry. Limited spots, apply to attend via the waiting list: chalmers.ungapped.io/Events/5f087...
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MIT Department of Chemistry @mitchemistry.bsky.social · 25/08/2026
The MIT Department of Chemistry is hiring! We are seeking candidates for a tenure-track Assistant Professor position beginning July 1, 2027. We welcome applicants across all areas of chemistry. Applications are due October 1, 2026. Learn more and apply: chemistry.mit.edu/chemistry-ne...
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Rocío Mercado Oropeza @rociomer.bsky.social · 25/08/2026
Join us in Gothenburg this fall for the 4th annual Structured Learning Workshop! Amazing line-up 🤩
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Andrew Bissette @andrewbissette.bsky.social · 23/08/2026
Guys, Sweden is so nice. Have you heard about this?
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Olexandr Isayev 🇺🇦 🇺🇸 @olexandr.bsky.social · 22/08/2026
Faculty position (open rank, open area of chemistry) at CMU! Come to be my colleague! Let me know if you have any questions about this position. #compchem #chemsky #chemfolks #chemjobs #academicjobs
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Alex Guseman @alexguseman.bsky.social · 21/08/2026
Come be my colleague! We are hiring a structural biologist. I have thoroughly enjoyed starting my career here and both department(s) are full of exceptional scientists. apol-recruit.ucsd.edu/JPF04589
apol-recruit.ucsd.edu
Assistant Professor in Structural Biochemistry
University of California, San Diego is hiring. Apply now!
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Greg Landrum @greglandrum.bsky.social · 18/08/2026
The #RDKit UGM in Darmstadt is almost here (16-18 September), but if you want to attend, we still have some slots available. Free registration here: www.eventbrite.com/e/15th-rdkit...
eventbrite.com
15th RDKit UGM 2026
2026 RDKit User Group Meeting (in person and online)
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tenuretracker.info @tenuretracker.bsky.social · 13/08/2026
Chalmers University of Technology is hiring: Postdoc in Electrocatalysis #postdoc #chemsky #electrocatalysis
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Kay Severin @kay-severin.bsky.social · 13/08/2026
Faculty position in our institute @EPFL: www.epfl.ch/about/workin...
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Noel O'Boyle @baoilleach.bsky.social · 10/08/2026
We're still looking for candidates who are interested in working on an industry-relevant project in close collab with a major pharmaceutical company. It's a really nice opportunity for someone looking to transition to an industry position. #chemjobs #phdjobs #cheminformatics #bioinformatics
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Tristan Bereau @tbereau.bsky.social · 03/08/2026
PhD position in Heidelberg: generating amorphous molecular thin films with diffusion models rather than waiting for MD to equilibrate them — free energies from the same model. With U. Köthe. 3 years, funded. Physics degree required. tristanbereau.com/positions/ge...
tristanbereau.com
Generative machine learning for molecular thin films – Tristan Bereau
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Costa Samaras @costasamaras.com · 02/08/2026
The application for the AAAS Science & Technology Policy Fellowship, which places scientists & engineers into roles in Congress and in the Executive Branch, opened today. This program is essential for building technical policy capacity in the US. If interested, apply: fellowshipapp.aaas.org/app/main
fellowshipapp.aaas.org
STPF Application - AAAS
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pen(Taka) @iwatobipen.bsky.social · 01/08/2026
Run Openfold3 on my laptop machine #openfold3 #co-folding #informatics Recently several co-folding AI are available, for example AF3, Chai-1, protenix and openfold. This area is hot and growing day by day. Co-Folding AI has potential for taking SBDD approach without determining the target…
iwatobipen.wordpress.com
Run Openfold3 on my laptop machine #openfold3 #co-folding #informatics
Recently several co-folding AI are available, for example AF3, Chai-1, protenix and openfold. This area is hot and growing day by day. Co-Folding AI has potential for taking SBDD approach without determining the target protein-ligand structure. As most of readers know that there are still limitation of using co-folding AI for SBDD but really useful I think. I have an interest in openfold because openfold disclose code and has good open scientific community.
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Rocío Mercado Oropeza @rociomer.bsky.social · 29/07/2026
Don't miss your chance to register for the Structured Learning Workshop, to be held October 27-28 in Gothenburg, Sweden. 🇸🇪 Amazing line-up of speakers, super excited to be hosting this event now for the 4th year here at Chalmers! Registration link and more info: chalmers.ungapped.io/Events/5f087...
chalmers.ungapped.io
2026 CHAIR Structured Learning Workshop
Welcome to the 2026 Chalmers AI Research Center Workshop for Structured Learning. In this workshop we broadly cover topics related to Structured Learning targeting specifically the following questions...
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Jes Frellsen @jesfrellsen.bsky.social · 01/07/2026
I am hiring a PhD student at DTU Compute to work on uncertainty quantification for large language models. 📅 Deadline: 7 August 2026. Please share with anyone who might be a great fit. 🔗 Apply here: efzu.fa.em2.oraclecloud.com/hcmUI/Candid...
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Rocío Mercado Oropeza @rociomer.bsky.social · 25/06/2026
I will be at ChemAI NYC next week! Really looking forward to it, both to present what our team has been up to and to meet everyone else there. If anybody wants to meet up while I'm New York please reach out 🗽 wp.nyu.edu/sccpc/chemai/
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Kresten Lindorff-Larsen @lindorfflarsen.bsky.social · 23/06/2026
Come join the new Novo Nordisk Foundation Center for Protein Design as a group leader Cool science in a great scientific environment in wonderful and very family friendly Copenhagen There are two positions that can either be at TT assistant or associate prof level employment.ku.dk/tenure-track...
employment.ku.dk
Tenure-track Assistant Professor or Associate Professor of De novo Protein Design
The Novo Nordisk Foundation Center for Protein Design at the University of Copenhagen seeks to appoint two new group leaders in de novo protein design from 1 February 2027 or as soon as possible thereafter. These positions will be at the Assistant or Associate Professor level and associated with the Department of Biology (Faculty of Science) or the Department of Drug Design and Pharmacology (Faculty of Health and Medical Sciences).
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Filip Miljković @filipmiljkovic.bsky.social · 21/06/2026
Our paper describing curation of bioactivity data for drugs and their associated metabolites is now published in Molecular Pharmaceutics. We were surprised to see that 26% of metabolites had either increased or retained activity compared to their parent drugs. Paper: pubs.acs.org/doi/10.1021/...
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Rocío Mercado Oropeza @rociomer.bsky.social · 19/06/2026
Glad midsommar! 🌼🇸🇪 Kicking off the third and final day of #ML2MD2026 with a talk from Leiting!
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Rocío Mercado Oropeza @rociomer.bsky.social · 18/06/2026
Second day of #ML2MD2026 starting with excellent talks from Xiang, Harish, and Shaoqi!
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Rocío Mercado Oropeza @rociomer.bsky.social · 17/06/2026
Kicking off #ML2MD2026 with introductory remarks from Chao and Håkan sharing about the WISE program! 🥳
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Rocío Mercado Oropeza @rociomer.bsky.social · 16/06/2026
Amazing postdoc in my team Phil Harrison just preprinted on @chemrxiv.org his extensive review on biologically-conditioned molecular generative models, where we also provide perspective on where gaps are in the field and the challenges spanning biochem domains #chemsky chemrxiv.org/doi/10.26434...
chemrxiv.org
Biologically-driven generative chemistry: using biological data to guide de novo drug design | ChemRxiv
Drug discovery is a dauntingly difficult process due to the enormous space of possible molecules and the complexity of biological systems. Traditional in silico drug design methods have focused primarily on optimising chemical properties, often ...
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Alex Hernandez-Garcia @alexhergar.bsky.social · 12/06/2026
I very often hear from colleagues the argument that AI compute energy in Québec and Canada is almost free and clean so we don't need to worry about consumption. This is flawed in multiple ways but this report about the fed government plans to feed data centres with gas makes it crystal clear.
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Juliette Griffié @juliettegriffie.bsky.social · 11/06/2026
🚨I will be recruiting 2 PhD students to start this fall. You can apply for this position as of the 1st of July www.su.se/english/divi...
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NSF Center for Computer Assisted Synthesis (C-CAS) @nsf-ccas.bsky.social · 10/06/2026
🚨 New Paper Alert 🚨 Check out this new paper from the Coley group. Congratulations to co-first authors Suong Tran and Jihye Roh! pubs.rsc.org/en/Content/A... #chemistry #chemsky #datachem #computerscience #nsf
pubs.rsc.org
Quantifying the Failure Modes of Current One-step Retrosynthesis Models
Computer-aided synthesis planning (CASP) automates retrosynthetic analysis, generally by recursively applying one-step retrosynthesis models within multistep search algorithms to simplify a target mol...
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Rocío Mercado Oropeza @rociomer.bsky.social · 09/06/2026
On Thursday we look forward to hosting Sereina Riniker (ETH Zürich) for the last AI4Science seminar of the academic year. Don't miss it! At 15:00 CEST 🇸🇪 in EDIT Analysen at Chalmers, and online. See link below for details: www.chalmers.se/en/current/c... Co-organized with @smnlssn.bsky.social
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Paulo C. T. Souza @pauloctsouza.bsky.social · 07/06/2026
🚀 Sponsorship opportunities still available 📍 Lyon, France | 14–16 October 2026 Registration opening soon. Stay tuned for further announcements! #CGML2026 #MachineLearning #MolecularModeling #CoarseGrained #DrugDiscovery #Formulations #MaterialsScience
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Rocío Mercado Oropeza @rociomer.bsky.social · 04/06/2026
My collaborator @ospjuth.bsky.social is recruiting a postdoc in cell biology to work on CRISPR perturbation and high-content imaging as part of our TIMED NEST project. Amazing team, please share! For information on how to apply, see the ad below: www.uu.se/en/about-uu/... #chemsky #chemjobs
uu.se
Postdoc in Cell Biology – CRISPR Perturbation and High-Content Imaging - Uppsala University
Postdoc in Cell Biology – CRISPR Perturbation and High-Content Imaging, Department of Pharmaceutical Biosciences, Uppsala University
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Cristina Trujillo @trujillo-group.bsky.social · 02/06/2026
MSCA Postdoctoral Fellowships are open. If you’re thinking of applying and your work fits catalysis / computational chemistry / QM-ML, feel free to get in touch for an informal chat. marie-sklodowska-curie-actions.ec.europa.eu/whats-new/ne... #MSCA #postdoc #compchem #catalysis #ML
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Rocío Mercado Oropeza @rociomer.bsky.social · 26/05/2026
Only a week left to apply!!! Registration closes June 1st for the 2nd Machine Learning for Materials and Molecular Discoveries (ML2MD) Symposium at Uppsala University 🇸🇪 June 17-19. #chemsky Note the updated speaker list. So excited for this event at the interface of AI and materials discovery! ⚛️
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ELLIS @ellis.eu · 19/05/2026
🎉 7 new ELLIS Units join our network Units Franconia 🇩🇪, Grenoble 🇫🇷, and NRW 🇩🇪 strengthen existing hubs; Units Slovenia 🇸🇮and Sweden 🇸🇪 add new countries; Units Czechia 🇨🇿& Denmark 🇩🇰 expand from city to national Units. Learn more: bit.ly/4nN3vcD
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Rocío Mercado Oropeza @rociomer.bsky.social · 19/05/2026
I gave a seminar two weeks ago for the AI4b.io webinar series, in case you missed it and want to learn a bit more about some of my team's recent work on AI for molecules, you can now check out the recording! 🎬🧑‍🔬 Event page (recording/Vimeo link at bottom): www.ai4b.io/news-and-eve...
ai4b.io
AI4b.io Webinar | Rocío Mercado Oropeza
Rocío Mercado Oropeza | Assistant Professor at Chalmers University of Technology Abstract: Generative and predictive machine learning models are reshaping how we explore chemical compound space,…
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Richard Van Noorden @richvn.bsky.social · 12/05/2026
This preprint on hallucinated citations suggests a greater problem on SSRN (reaching 1.9% of total by August 2025) than arXiv, bioRxiv, or PMC (variously 0.2-0.4%). Intriguing if methods hold up; study restricts itself to looking for references with non-existent titles. arxiv.org/abs/2605.07723
arxiv.org
LLM hallucinations in the wild: Large-scale evidence from non-existent citations
Large language models (LLMs) are known to generate plausible but false information across a wide range of contexts, yet the real-world magnitude and consequences of this hallucination problem remain p...
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Rocío Mercado Oropeza @rociomer.bsky.social · 11/05/2026
Amazing postdoc in my team, @rbeckmann.bsky.social , has now pre-printed his work on ML+MD for surfactant property prediction! 💻🧪 #chemsky Work generously supported via the Intel-Merck Joint Academic Research Center (AWASES). Read on for details: chemrxiv.org/doi/full/10....
chemrxiv.org
A unified experimental-simulation dataset and surrogate models for surfactant property prediction | ChemRxiv
Surfactants are structurally diverse molecules whose interfacial properties are central to a wide range of industrial and scientific applications, yet their systematic evaluation remains challenging due to the cost of both wet-lab experiments and ...
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Craig M. Crews @craigmcrews.bsky.social · 09/05/2026
First PROTAC gains FDA approval, bolstering targeted protein degradation and induced proximity ambitions www.nature.com/articles/d41...
nature.com
First PROTAC gains FDA approval, bolstering targeted protein degradation and induced proximity ambitions
Discover the world’s best science and medicine | Nature.com
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Rocío Mercado Oropeza @rociomer.bsky.social · 06/05/2026
Tomorrow Thursday May 7th we are excited to welcome @molecularxtal.bsky.social to Chalmers for the AI4Science seminar! #chemsky Her talk is at 15:00 CEST in EDIT Analysen or online (see webpage below for Zoom link): psolsson.github.io/AI4ScienceSe...
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Johns Hopkins Berman Institute of Bioethics @bermaninstitute.bsky.social · 05/05/2026
How much of the scientific literature is generated by AI? www.nature.com/articles/d41...
nature.com
How much of the scientific literature is generated by AI?
Tools for reliably estimating what artificial intelligence is being used for are still lacking.
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Rocío Mercado Oropeza @rociomer.bsky.social · 05/05/2026
A recording of @briantrippe.bsky.social's AI4Science seminar last month is now online! 🎬 www.youtube.com/watch?v=Rism... Check it out to learn more about calibration methods for generative models in the context of protein design.
youtube.com
Dr. Brian Trippe (Stanford) --- Calibration methods for generative models with application to pro...
YouTube video by Chalmers AI4Science
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Simon Olsson @smnlssn.bsky.social · 03/05/2026
Thrilled to announced that PLaTITO was accepted as a poster for ICML! Congrats to lead @panosantoniadis.bsky.social and to collaborators Beatrice and @olewinther.bsky.social. An updated version of the pre-print with more results will be posted soon, until then: panosantoniadis.github.io/platito/
panosantoniadis.github.io
PLaTITO: Protein Language Model Embeddings Improve Generalization of Implicit Transfer Operators
PLaTITO incorporates protein language model embeddings into generative molecular dynamics, achieving state-of-the-art equilibrium sampling on out-of-distribution proteins including fast-folding protei...
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Rocío Mercado Oropeza @rociomer.bsky.social · 21/04/2026
Don't forget to register for #ML2MD2026! Hope to see you in Uppsala in June for this exciting symposium at the interface of ML and materials discovery. ☀️🧪💻 #chemsky chalmers.ungapped.io/Events/6bdec...
chalmers.ungapped.io
2026 Machine Learning for Materials and Molecular Discoveries Symposium
About the Event Join us for the 2026 symposium on Machine Learning for Materials and Molecular Discoveries (ML2MD). At this symposium, we seek to highlight some of the key research developments at the...
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Rocío Mercado Oropeza @rociomer.bsky.social · 14/04/2026
Registration is now open for the AiMat Summer School "Machine Learning for Molecules" 2026, organized in Karlsruhe 14-18 September by Pascal Friederich & team. I will be one of the lecturers. Sign up, and/or share with your students, for what is sure to be an exciting week of tutorials! 💻 #chemsky
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Rocío Mercado Oropeza @rociomer.bsky.social · 13/04/2026
🧪 Can LLMs judge chemical synthesis plans? Excited to share new work from our industrial postdoc Varvara Voinarovska, in collaboration with Samuel Genheden and Mikhail Kabeshov at AstraZeneca's Molecular AI team! 📄 : doi.org/10.26434/che...
doi.org
Do humans and large language models agree on the quality of synthesis plans? | ChemRxiv
Large language models (LLMs) have seen a widespread adoption in all spheres of science including chemistry and cheminformatics. Nevertheless, our knowledge of how they operate is limited, giving rise to exploration of their capabilities in different areas ...
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Olexandr Isayev 🇺🇦 🇺🇸 @olexandr.bsky.social · 08/04/2026
Glad to share our new work: RitS (Right into the Saddle): a generative model for direct transition state (TS) prediction. 📄 Paper: chemrxiv.org/doi/full/10.26… 🤠 Code: github.com/isayevlab/RitS • Flow-matching model with explicit stereochemistry control • Direct TS generation from SMILEs #compchem
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Simon Olsson @smnlssn.bsky.social · 08/04/2026
We are looking forward to welcome @briantrippe.bsky.social for this months Chalmers AI4Science seminar tomorrow. Check psolsson.github.io/AI4ScienceSe... for details on how to connect!
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Marta Skreta @martaowesyou.bsky.social · 08/04/2026
What if AI could invent enzymes that nature hasn’t seen? 👩‍🔬🧑‍🔬 Introducing 🪩 DISCO: Diffusion for Sequence-structure CO-design 📝 Blog: disco-design.github.io 📄 Paper: arxiv.org/abs/2604.05181 💻 Code: github.com/DISCO-design...
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Cory Simon @corymsimon.bsky.social · 07/04/2026
check out our new paper on Bayesian experimental design for surfactant characterization! pubs.acs.org/doi/10.1021/...
pubs.acs.org
Adaptive, Bayesian Experimental Design to Efficiently Determine the Critical Micelle Concentration of a Surfactant
Surfactants are widely used for industrial applications, yet more environmentally friendly surfactants with enhanced properties are demanded. A key thermodynamic property governing the behavior of a surfactant in an aqueous solution is its critical micelle concentration (CMC). Below the CMC, increasing the surfactant concentration reduces the surface tension of the solution; above the CMC, the water–air interface becomes saturated with adsorbed surfactant, leading excess surfactant to self-assemble into micelles and the surface tension to plateau. Many physicochemical properties of a surfactant solution exhibit sharp changes at the CMC. The conventional experimental protocol to determine the CMC of a surfactant is labor-intensive and time-consuming: (1) prepare many surfactant solutions spanning a wide concentration range and then (2) measure the surface tension of each solution. Herein, we adopt Bayesian experimental design (BED) to determine the CMC of a surfactant more efficiently─even without prior knowledge of its order of magnitude. BED follows an experiment-model-design feedback loop: (1) prepare a surfactant solution and measure its surface tension; (2) use all surface tension data thus far to obtain a posterior distribution over thermodynamic models of the surface tension isotherm of the surfactant; and (3) pick the surfactant concentration for the next experiment to maximize expected information gain about the CMC. We show that BED efficiently gathers information about the CMC using two surfactants (octyl-β-d-thioglucopyranoside and Triton X-100) as test cases. Broadly, BED can reduce the time, effort, cost, and chemical waste to determine the CMC of surfactants and drive an autonomous laboratory for surfactant discovery and characterization.
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