An international team of immunologists, clinicians, experimentalists, computational biologists, and engineers is building an Immune Digital Twin to transform human healthcare for immune-mediated diseases. #ImmunoSky #DigitalTwin 🧪

By Niarakis et al., including: @athinacp.bsky.social @eirini-tsirvouli.bsky.social @hasanbalci.bsky.social @ozanozisik.bsky.social @arnaumontagud.bsky.social @subbannayya.bsky.social @mkutmon.bsky.social Learn about their 5-year plan: www.immunoinformaticsjournal.com/article/S266...

🚨 New in PNAS! 🧬 64% of disease co-occurrences can be explained by transcriptomic similarities. Comorbidities aren’t random—they have a molecular basis. Here’s how we found it 👇 (1/n) 🔗 doi.org/10.1073/pnas.2421060122 @alfonsovalencia.bsky.social

8/ Science already takes time, I hope to help make it worth it. Finally, terrified, we sent it to PNAS @pnas.org. After one round of review, reports came back: supportive. Positive. Accepted 🎉 🎉

1/ Everything that could go wrong in paper publishing… did. A story of patience, absurdity, and persistence 🌀 <1min From Alfonso Valencia’s lab and a very stubborn PhD student (me).

📢🔬 Abierto el plazo de inscripción para la II Jornada de Colaboración Público-Privada sobre Biología Computacional del #I2SysBio (@csic.es - @uv.es). 🗓 2 de septiembre www.i2sysbio.es/communicatio... ✍ Asistencia gratuita bajo previa inscripción. @moldrug.bsky.social @protoqsar.bsky.social

Great opportunity to learn about computational systems biology modelling at the Wellcome Genome Campus in December. If you are interested in signing up, do so as soon as possible as the deadline is August 25!

>> My conclusion: we do not have to demonstrate anything they have to change and adapt to the evolution of science / biology<< And computational biology is an essential component of biology. (It is ridiculous to have to say this in 2025)

Hiding Prompt Injections in Academic Papers Academic papers were found to contain hidden instructions to LLMs: It discovered such prompts in 17 articles, whose lead authors are affiliated with 14 institutions including Japan's Waseda University, South Korea's KAIST, China's Peking University and…

Original article: www.nature.com/articles/s41... 🧬🖥️ 👩‍🔬 🧪 The article explains how long-read transcriptomics enables the study of isoform expression, discovery of novel RNAs, gene annotation in understudied species, and differential expression between paternal and maternal chromosomes, etc.

🦑🧪 I2SysBio researchers participate in Catalan Initiative for the Earth Biogenome Project @catbiogenoma.bsky.social of the Institut d'Estudis Catalans @iec.cat. Recently, Maria Dzunkova's @dzunkovam.bsky.social team published a paper in Ecology and Evolution 🌐 www.i2sysbio.es/communicatio... ⬇️

Two PhD positions to work on important and cool topics. And to make it even better, with some very nice and good people.

... it's dissolving humanity and culture and science... Without pause and time to think and reflect, and dedication to reach deeper into a problem, we only have the appearance of science. The incentives are all in the wrong side.

🚨 Two PhD positions available in the lab of @arnaumontagud.bsky.social in I2SysBio 🇪🇸. Both are related to simulations of biological tissues

📢 Exciting news! We will soon open two PhD positions at @i2sysbio.bsky.social @csic.es, in research projects in collaboration with the @bsc-cns.bsky.social. Both are related to tools to simulate biological tissues. Here’s the description of the open positions. #PhDpositions #PhDOpportunities 👇

Excited to see scPRINT published in @natcomms.nature.com ! scPRINT is a large cell model for the inference of gene networks pre-trained on 50Mcells with innovative pretraining tasks inspired from biology. Work led by @jkobject.com

Alfred Fillol @alfredfisa.bsky.social, Arnau Montagud @arnaumontagud.bsky.social and Guillem Salazar @guillemsalazar.bsky.social are the three scientists who joined the Faculty of our institute I2SysBio last year. Follow them on Bluesky! More info on our website www.i2sysbio.es/communicatio... 🧪🦠💻🧬

⭐️We are hiring! ⭐️ We have 2 open postdoctoral positions in systems biology in Bordeaux, France. - 1️⃣ 2 years (+ 2) in metabolic modelling for cultivating uncultured bacteria. - 2️⃣ 18 months (+ 14 mo) in metabolic modelling of the rumen microbiome for methane reduction More info: cfrioux.github.io ⬇️

HubBCB-01 @CSIC.es. Impacto del microbioma respiratorio humano en la introducción de un nuevo patógeno. IP Mireia Coscolla (I2SYSBIO, Valencia) Cinco meses, cinco mensualidades de 600€, 20 horas/semana. Nota media de grado al menos 7. Si grado terminado, matriculado master bioinformática o similar.

Beca JAE-Intro ICU 2025 para realización TFM en bioinformática (HubBCB-14), bajo la dirección de @christinatoft.bsky.social en el @i2sysbio.bsky.social 5 meses, 20h/semana, 600euros/mes Solicitudes hasta 16 Abril '25 más información en: sede.csic.gob.es/tramites/pro... DM si interesado/a

Convocatoria JAE Intro @csic.es abierta! El @i2sysbio.bsky.social oferta 5 plazas para personas que tengan un grado en Ciencias durante 5 meses a media jornada. Ideales para estudiantes de máster en busca de un proyecto de iniciación a la investigación. Más info: sede.csic.gob.es/tramites/pro...

Tercer día de la #2AsambleaBCBHub. Tenemos el honor de contar con Elena Cartea de @csic-vaact.bsky.social abriendo la jornada contandonos las iniciativas de @csic.es en Conexiones y PTIs.

🚨El I2SysBio participa en los eventos internacionales celebrando la 'Biophysics Week' con el ya tradicional BIOPHYZZA 🍕🍻 *El evento es gratuito pero hay que inscribirse!* research.uv.es/biophyzza/ @i2sysbio.bsky.social @ucciuv.bsky.social @biophysicalsoc.bsky.social Ayudanos a difundir ↩️🙏

🌐Europe takes a major step towards digital autonomy in supercomputing and #AI with the launch of the DARE project 💻Based on #RISCV , this EuroHPC project coordinated by BSC will deliver high-performance & energy-efficient supercomputing for research & industry. 🔗 www.bsc.es/ZyZ

Really excited that Anna Niarakis will give the next CRCT #bioinformatics seminar on Friday 14th March at 11 in salle Cazaux!

Next, Ana Martinez and Carmen Gil from @cib-csic.bsky.social presenting how to use a consortium of AI tools for drug design, with múltiple applicatons in the clínic @bcbhubcsic.bsky.social @csic-vaact.bsky.social #2AsambleaBCBHub

Kickking off the second day our @bcbhubcsic.bsky.social meeting with scientific sesions with Victor Sánchez Gaya, presenting POSTRE, a tool to predict the funcional impact of pstructural variants @hitseq.bsky.social @ibv-csic.bsky.social @csic-vaact.bsky.social

@anaconesa.bsky.social opening the Second General Assembly of the @bcbhubcsic.bsky.social at the main @csic.es site. Three days of #compbio and #bioinfo discussions ahead!

🚨Job offer at our research institute I2SysBio 🇪🇸: Contract for International Program Management, specialized in ERC @erc.europa.eu programs 🧪 #science #researchgrants #JOBOFFER #i2sysbio @ucciuv.bsky.social @csic.es @uv.es i2sysbio.es/position/4/

Unbelievable news. Pancreatic is one of the deadliest cancers. New paper shows personalized mRNA vaccines can induce durable T cells that attack pancreatic cancer, with 75% of patients cancer free at three years—far, far better than standard of care. www.nature.com/articles/s41...

📢 The recorded session is available at this YouTube link youtu.be/TzZpObN1fhs

If you are into modeling of multicellular systems you don't want to miss this! www.embl.org/about/info/c... @i2sysbio.bsky.social @crg.eu @barcelonacollaboratorium.com @embl.org

🚨5th of February - online bioinformatic seminar organized by @bcbhubcsic.bsky.social @csic.es on integrating multi-omics data to create comprehensive Boolean models of biological systems, presented by Arnau Montagud @arnaumontagud.bsky.social , researcher at I2SysBio @i2sysbio.bsky.social 🖥🧬

@arnaumontagud.bsky.social @i2sysbio.bsky.social presents the bioinformatic tool PROFILE, designed to analyse and model biological data, focusing on integrating multi-omics data to create comprehensive Boolean models of biological systems. 👉Feb 5, at 11:50 CET via us06web.zoom.us/j/88169246545

🧪 let's see the impact of 🔵 sky for finding expertise! My dept is in ASAP need of somebody with bioinformatics expertise to provide content for several course developments. Work is remote and contract, courses will be online asynch. Courses are for bio and data science majors. Pls spread the word! 🙏

A fun FYI: PhysiCell was first publicly presented in 2015, with first open source release in 2016. So let's call 2025 our 10th anniversary! 🧪

Proud of @conesalab.bsky.social and @MSCActions @LongtrecEU amazing doctoral candidate @Tian_Yuan_Liu for this timely and comprehensive review on #LongReadSequencing to profile the epigenome and reveal complex chromatin states. Published in @naturegenet.bsky.social www.nature.com/articles/s41...

Agraïr a Bromera el gran treball que ha fet amb el llibre #LaCulturadelEsmorzar. En especial a Marc Senabre que a banda de bon editor, és un immillorable domador de bèsties. També als amics que ens han acompanyat en el camí @julipereto.bsky.social, i a la taula Ricard Camarena (No és Lobezno)

Estrenant-me, molt il•lusionat, al @i2sysbio.bsky.social

I participated in a faculty panel a few weeks ago in which senior (ahem) faculty gave advice on careers in academia by pretending luck had very little to do with our success. One piece of advice riled me up, in which it was argued that a reason for their success was their ability to say no. 1/

Thank you so much to whoever put this very comprehensive list of #science Bsky starter packs together. This is just amazing: docs.google.com/document/d/1...

17 #PhD positions available within the #MSCA doctoral network project INCITE (Insect Clock Initial Training Experience) in UK, Germany, France, Poland, Netherlands, Italy, Czechia, Israel and at our institute in Valencia in Spain! Deadline 25/01/2025 More info: incite.entu.cas.cz

17 PhD opportunities in 🦠🧫🧪🔬🧬🖥🦟🪳across 9 European countries in a #MSCA doctoral network including our @i2sysbio.bsky.social institute

Today’s workshop is about #OpenScience at @univlorraine.bsky.social More specifically, it’s about opening code written for scientific research, an emerging area of open science The room is full, it’s nice to see the scientific community embracing open science jsolorraine2024.sciencesconf.org

Ok here’s a thread of feeds that aren’t topic themed but utilitarian and do things like show you different versions of your timeline or provide services that should be official Bluesky features. 🧵

We' re #hiring a #postdoc in my team at @pasteur.fr and @cnrs.bsky.social funded by Institut PRAIRIE to work on the inference of molecular mechanisms from the integration of spatial transcriptomics and #singlecell multi-omics data. Learn more at emploi.cnrs.fr/Offres/CDD/U...

Why doesn’t evolution follow a path of constant #adaptation? Over the past 50 years, punctuated equilibrium has expanded leading to a unified framework for punctuated #evolution across scales—from genes to #ecosystems & our planet. Our new collaboration at doi.org/10.1111/pala...

Gene regulation involves thousands of proteins that bind DNA, yet comprehensively mapping these is challenging. Our paper in Nature Genetics describes ChIP-DIP, a method for genome-wide mapping of hundreds of DNA-protein interactions in a single experiment. www.nature.com/articles/s41...

We strongly suggest that academic publishers and other platforms that host research rapidly implement a Share to Bluesky button for their articles. Here's how: docs.bsky.app/docs/advance... #AcademicSky #HigherEd #Altmetrics

At @i2sysbio.bsky.social, together with my collaborators from Tunisia, we have a new paper about genomes of isolates from tannery effluents. These strains can be used for bio-remediation of areas affected by heavy metals used in leather tanning www.sciencedirect.com/science/arti... 🦠🧫🖥️🧬 #MicroSky