Ensembl's Aleena M S on Genomic Data Integration

The goal of Middle Author Bioinformatics is to make bioinformatics more accessible to biologists. With that in mind, FeGenie is now available as a web app at fegenie.midauthorbio.com, making it easier to use without the command line. FeGenie helps identify iron-related genes in genomes and metagenomes. This includes genes involved in iron uptake, storage, regulation, oxidation, and reduction, along with nearby gene neighborhoods that help place those genes in context. It was designed to capture iron-related functions that are often not clearly picked up by standard annotation pipelines, especially those tied to iron redox processes. Check out the paper to learn more: https://lnkd.in/ggtRN36T

We’re excited to share HIDDENdb, a new web-based app to explore genetic co-dependencies across large-scale perturbation datasets. This work was led by Iresha De Silva, a former Master’s student in Bioinformatics in the lab, who led the development of the platform and the underlying computational biology. HIDDENdb integrates CRISPR and shRNA dependency data with complementary functional evidence to help uncover shared gene dependencies, identify functional modules, and generate hypotheses (especially for understudied genes). In the applications note, we showcase a few examples, but we’d really love others to explore their favourite genes and see what emerges. We’re particularly interested in feedback from domain experts to help us identify: 🟢 strengths of the approach 🔴 limitations and potential biases 📈 datasets or features we should integrate next We are still working on general scoring function that captures the insights from the different sources used. Nevertheless, if you have a few minutes to try it out, we’d greatly appreciate your thoughts 🙌 🛠️ Web App: https://lnkd.in/e45cY-CA 📰 Pre-print link: https://lnkd.in/eSnVYCfp #preprint #functionalgenomics #bioinformatics #CRISPR #systemsbiology

I’m excited to repost below to share HIDDENdb, a new web-based platform designed to explore genetic co-dependencies across large-scale perturbation datasets. This project was led by me during my Master’s in Bioinformatics at Aarhus University under the supervision of Xavier Bofill De Ros, PhD. I’m also grateful for the support of Shantha Pathma Bandu Yaddehige , who contributed to building the mini-infrastructure that enabled large-scale data analysis and ensured secure data processing. These efforts collectively supported the development of both the platform and its underlying computational biology framework. Work is still ongoing to develop a general scoring framework grounded in statistical methods, with a strong focus on semi-supervised learning approaches inspired by Bayesian theory and the integration of insights from diverse data sources. Excited to continue improving the platform and pushing this work forward. Nevertheless, if you have a few minutes to try it out, we’d greatly appreciate your thoughts 🙌 🛠️ Web App: https://lnkd.in/e45cY-CA 📰 Pre-print link: https://lnkd.in/eSnVYCfp #preprint #functionalgenomics #bioinformatics #CRISPR #systemsbiology

The Genomic Revolution isn’t coming; it’s already here. 🌍🧬 Modern science and medicine are being redefined by our ability to read the blueprint of life. In a world increasingly driven by data, understanding Genomics—the entire set of an organism's genes—is no longer negotiable; it’s an absolute essential. Swipe through our new flyer to see how we provide the practical analytical skills you need to stand out on the global research stage. At Noblekinmat, our all-round teaching covers the complete workflow, turning complex data into real-world insights: ✅ THE THREE KEY TYPES of Genomics: Structural Genomics: (Sequence/Map organization). Functional Genomics: (Gene Expression and roles). Comparative Genomics: (Cross-species comparisons). ✅ THE CRUCIAL WORKFLOW: From a DNA Sample 🔬 ➡️ to Genome Sequencing ➡️ to Data Analysis ➡️ to Gene Identification ➡️ and finally, Biological Interpretation. We make you a master of the entire pipeline. Whether you are looking to advance in precision medicine, agricultural biotech, or academic research, we equip you to lead. Watch out for the next enrollment and ensure you don’t miss it! Slots fill up within days. Turn on notifications so you are the first to get the dates! #Noblekinmat #Genomics #Bioinformatics #HealthcareInnovation #HigherEducation #STEMCareers #DataScience #CareerGrowth

🧬 From Human Genes to Bacteria, AI Is Mapping the Genetic Code of Life Imagine trying to understand billions of DNA letters across thousands of organisms. Sounds impossible, right? 🤯 That’s where AI is changing biology forever. Today, scientists are using AI to: 🤖 Decode complex genomes faster 🧬 Predict gene functions 🦠 Study microbes and bacteria at massive scale 💊 Accelerate drug discovery and precision medicine What once took years of research can now be explored in weeks or even days with powerful algorithms. We’re entering an era where biology meets artificial intelligence — and the possibilities are endless. 🚀 👇 Do you think AI will become the most important tool in future biology research? #AIinBiotech #Genomics #ArtificialIntelligence #Biotechnology #Bioinformatics #FutureOfScience #PrecisionMedicine #LifeScience #GeneticResearch #STEMInnovation

𝗙𝗿𝗼𝗺 𝗔𝘀𝘁𝗲𝗿𝗼𝗶𝗱𝘀 𝘁𝗼 𝗘𝗱𝗶𝘁𝗶𝗻𝗴 𝗟𝗶𝗳𝗲: 𝗧𝗵𝗲 𝗖𝗼𝘀𝗺𝗶𝗰 𝗢𝗿𝗶𝗴𝗶𝗻𝘀 𝗼𝗳 𝗚𝗲𝗻𝗼𝗺𝗲 𝗜𝗻𝗻𝗼𝘃𝗮𝘁𝗶𝗼𝗻 𝗗𝗼𝘄𝗻𝗹𝗼𝗮𝗱 𝐅𝐫𝐞𝐞 𝗣𝗗𝗙 𝗕𝗿𝗼𝗰𝗵𝘂𝗿𝗲: https://lnkd.in/gz_QDirk What if the very code of life didn’t just originate on Earth—but arrived from space? The discovery of all five nucleobases—adenine, thymine, cytosine, guanine, and uracil—on an asteroid reinforces a powerful idea: the fundamental building blocks of DNA and RNA may be universal, not exclusive. These molecules, which form the basis of genetic information, are now known to exist beyond our planet, hinting that the chemistry of life is embedded in the fabric of the cosmos. This has profound implications for genome editing. Technologies like CRISPR-Cas systems are built on the precise understanding and manipulation of these same nucleobases. Every edit, insertion, or deletion in a genome is essentially a rearrangement of these molecular letters. If these components can form naturally in extraterrestrial environments, it underscores their stability, adaptability, and evolutionary significance. In other words, genome editing is not just a technological breakthrough—it’s an extension of a universal biochemical language. For researchers and biotech innovators, this connection opens up a broader perspective. It strengthens the case for synthetic biology, where life can be engineered using standardized genetic parts. It also fuels the exploration of life beyond Earth, guiding how we search for biosignatures and interpret genetic-like systems elsewhere in the universe. More importantly, it reframes genome editing as part of a much larger narrative: from cosmic chemistry to precision medicine. As we continue to refine gene editing tools for applications in therapeutics, agriculture, and industrial biotech, we are essentially learning to write and rewrite a code that may have originated billions of years ago—possibly beyond Earth itself. The future of genome editing isn’t just biological. It’s cosmic. #genomeediting #genome #geneediting #gene #future #innovation #pharma

🧬 When Biology Meets Data: The Silent Revolution of Bioinformatics A few decades ago, understanding a single gene could take years. Today, with the power of Bioinformatics, scientists can analyze millions of DNA sequences in hours. Behind every new drug, vaccine, or genetic discovery, there is often a silent hero: data. From decoding genomes using projects like the Human Genome Project to editing genes with CRISPR-Cas9, bioinformatics is transforming biology into a data-driven science. But what excites me the most is this: The next life-saving discovery may not come only from a laboratory microscope — it may come from a computer analyzing biological data. Biology is no longer just about cells and microscopes. It’s also about algorithms, datasets, and computational thinking. The future biologist might look just as comfortable writing code as they are handling a pipette. And honestly, that future has already begun. #Biotechnology #Bioinformatics #Genomics #ComputationalBiology #ScienceInnovation

Basecamp Research just announced the Trillion Gene Atlas. Most AI in biotech is stuck training on the same limited public datasets. Basecamp took a different path — building one of the world’s largest proprietary biological datasets by going out into the real world. Now, in partnership with Anthropic and NVIDIA, they’re scaling our understanding of genetic diversity by 100x. The implication is simple but powerful: biology becomes programmable. In this episode, Oliver Vince breaks down how they built a real-world data moat, what “prompt-to-medicine” actually looks like, and why this category can be built out of Europe.

🧬 From Code to Function: The Central Dogma & Its Power in Bioinformatics Ever wondered how a simple sequence of DNA shapes life itself? It all comes down to one elegant flow of information: DNA → RNA → Protein 🔹 DNA – The Blueprint The master storage of genetic information. It holds the instructions that define who we are and what our cells can do. 🔹 RNA – The Messenger of Activity Formed through transcription, RNA reflects which genes are actually active at any moment — giving us a dynamic snapshot of cellular behavior. 🔹 Protein – The Doers Built through translation, proteins carry out nearly every function in the cell — from structure to signaling to metabolism. 🔬 Why This Matters in Bioinformatics In the world of data analysis, the central dogma connects everything: • DNA data → What can happen (genetic potential) • RNA data→ What is happening (gene expression) • Protein data → What actually happens (functional outcome) Understanding this flow allows us to move beyond raw data — helping us decode diseases, uncover biological mechanisms, and design better solutions in healthcare and research. ✨ In short: Biology isn’t just about sequences — it’s about the story they tell when interpreted together. #Bioinformatics #MolecularBiology #CentralDogma #Genomics #Proteomics #Transcriptomics #Proteomics #ComputationalBiology #GeneExpression #MultiOmics #SystemsBiology #NGS #PrecisionMedicine #DrugDiscovery #DryLab

🚀 What Is a Genome — And Why It’s the Most Powerful Blueprint in Modern Biology? After grasping the Central Dogma (DNA → RNA → Protein), the next transformative question is: Where is all biological information actually stored? The answer is both simple and astonishing: 🧬 The Genome. A genome is the complete set of DNA within an organism — every gene, every regulatory switch, every silent sequence, every evolutionary footprint. 🌍 The Human Genome at a Glance: ~3 billion base pairs ~20,000 protein-coding genes Only ~1–2% codes directly for proteins Which raises the most exciting question of all: 👉 What is the remaining 98% doing? For decades, it was labeled “junk DNA.” Today, we know that label was profoundly wrong. That 98% plays critical roles in: Gene regulation Chromatin architecture Epigenetic control Evolutionary conservation Non-coding RNAs Genome stability And we are still uncovering new layers of function. 🌟 A Turning Point in History The completion of the Human Genome Project in 2003 was not just a scientific milestone — it was a paradigm shift. It unlocked the era of: 🧬 Precision medicine 🔬 Large-scale variant discovery 🎯 Cancer genomics 🌎 Population genetics 🤖 AI-driven genomic modeling It transformed biology from descriptive science to data-driven predictive science. 💻 The Genomic Explosion Today, next-generation sequencing platforms generate terabytes of data daily. Raw sequences are no longer the bottleneck. Interpretation is. This is where bioinformatics, computational biology, and AI converge — turning sequences into insights, variants into biomarkers, and genomes into therapeutic strategies. 🔮 The Big Question Have we truly understood the functional depth of non-coding DNA? Or are we still standing at the edge of a much deeper regulatory universe? The genome is not just a sequence. It is a dynamic, multi-layered information system — and we are only beginning to decode it. 🗣️ I’d love to hear your perspective: Do you believe we have uncovered the true functional landscape of non-coding DNA? #Genomics #Bioinformatics #PrecisionMedicine #ComputationalBiology #AIinBiology #LifeSciences